Search results for the GEO ID: GSE6606 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM152931 | GPL8300 |
|
Tumor samples from patient No.34 PT34U95Av2
|
PT34, tumor samples from patient No.34
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152931
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152931/suppl/GSM152931.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152932 | GPL8300 |
|
Tumor samples from patient No.35 PT35U95Av2
|
PT35, tumor samples from patient No.35
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152932
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152932/suppl/GSM152932.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152933 | GPL8300 |
|
Tumor samples from patient No.36 PT36U95Av2
|
PT36, tumor samples from patient No.36
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152933
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152933/suppl/GSM152933.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152934 | GPL8300 |
|
Tumor samples from patient No.40 PT40U95Av2
|
PT40, tumor samples from patient No.40
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152934
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152934/suppl/GSM152934.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152935 | GPL8300 |
|
Tumor samples from patient No.41 PT41U95Av2
|
PT41, tumor samples from patient No.41
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152935
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152935/suppl/GSM152935.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152936 | GPL8300 |
|
Tumor samples from patient No.42 PT42U95Av2
|
PT42, tumor samples from patient No.42
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152936
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152936/suppl/GSM152936.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152937 | GPL8300 |
|
Tumor samples from patient No.43 PT43U95Av2
|
PT43, tumor samples from patient No.43
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152937
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152937/suppl/GSM152937.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152938 | GPL8300 |
|
Tumor samples from patient No.44 PT44U95Av2
|
PT44, tumor samples from patient No.44
|
Tissue:primary prostate tumor
Tumor stage: T4a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152938
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152938/suppl/GSM152938.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152939 | GPL8300 |
|
Tumor samples from patient No.45 PT45U95Av2
|
PT45, tumor samples from patient No.45
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152939
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152939/suppl/GSM152939.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152940 | GPL8300 |
|
Tumor samples from patient No.46 PT46U95Av2
|
PT46, tumor samples from patient No.46
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152940
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152940/suppl/GSM152940.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152941 | GPL8300 |
|
Tumor samples from patient No.47 PT47U95Av2
|
PT47, tumor samples from patient No.47
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152941
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152941/suppl/GSM152941.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152942 | GPL8300 |
|
Tumor samples from patient No.48 PT48U95Av2
|
PT48, tumor samples from patient No.48
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152942
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152942/suppl/GSM152942.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152943 | GPL8300 |
|
Tumor samples from patient No.50 PT50U95Av2
|
PT50, tumor samples from patient No.50
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152943
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152943/suppl/GSM152943.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152944 | GPL8300 |
|
Tumor samples from patient No.51 PT51U95Av2
|
PT51, tumor samples from patient No.51
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152944
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152944/suppl/GSM152944.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152945 | GPL8300 |
|
Tumor samples from patient No.52 PT52U95Av2
|
PT52, tumor samples from patient No.52
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152945
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152945/suppl/GSM152945.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152946 | GPL8300 |
|
Tumor samples from patient No.53 PT53U95Av2
|
PT53, tumor samples from patient No.53
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152946
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152946/suppl/GSM152946.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152947 | GPL8300 |
|
Tumor samples from patient No.54 PT54U95Av2
|
PT54, tumor samples from patient No.54
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152947
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152947/suppl/GSM152947.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152948 | GPL8300 |
|
Tumor samples from patient No.55 PT55U95Av2
|
PT55, tumor samples from patient No.55
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152948
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152948/suppl/GSM152948.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152949 | GPL8300 |
|
Tumor samples from patient No.56 PT56U95Av2
|
PT56, tumor samples from patient No.56
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152949
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152949/suppl/GSM152949.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152950 | GPL8300 |
|
Tumor samples from patient No.57 PT57U95Av2
|
PT57, tumor samples from patient No.57
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152950
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152950/suppl/GSM152950.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152951 | GPL8300 |
|
Tumor samples from patient No.58 PT58U95Av2
|
PT58, tumor samples from patient No.58
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152951
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152951/suppl/GSM152951.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152952 | GPL8300 |
|
Tumor samples from patient No.60 PT60U95Av2
|
PT60, tumor samples from patient No.60
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152952
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152952/suppl/GSM152952.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152953 | GPL8300 |
|
Tumor samples from patient No.61 PT61U95Av2
|
PT61, tumor samples from patient No.61
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152953
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152953/suppl/GSM152953.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152954 | GPL8300 |
|
Tumor samples from patient No.62 PT62U95Av2
|
PT62, tumor samples from patient No.62
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152954
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152954/suppl/GSM152954.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152955 | GPL8300 |
|
Tumor samples from patient No.63 PT63U95Av2
|
PT63, tumor samples from patient No.63
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152955
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152955/suppl/GSM152955.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152956 | GPL8300 |
|
Tumor samples from patient No.64 PT64U95Av2
|
PT64, tumor samples from patient No.64
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152956
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152956/suppl/GSM152956.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152957 | GPL8300 |
|
Tumor samples from patient No.65 PT65U95Av2
|
PT65, tumor samples from patient No.65
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152957
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152957/suppl/GSM152957.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152958 | GPL8300 |
|
Tumor samples from patient No.66 PT66U95Av2
|
PT66, tumor samples from patient No.66
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152958
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152958/suppl/GSM152958.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152959 | GPL8300 |
|
Tumor samples from patient No.67 PT67U95Av2
|
PT67, tumor samples from patient No.67
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152959
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152959/suppl/GSM152959.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152960 | GPL8300 |
|
Tumor samples from patient No.68 PT68U95Av2
|
PT68, tumor samples from patient No.68
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152960
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152960/suppl/GSM152960.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152961 | GPL8300 |
|
Tumor samples from patient No.69 PT69U95Av2
|
PT69, tumor samples from patient No.69
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152961
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152961/suppl/GSM152961.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152962 | GPL8300 |
|
Tumor samples from patient No.70 PT70U95Av2
|
PT70, tumor samples from patient No.70
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152962
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152962/suppl/GSM152962.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152963 | GPL8300 |
|
Tumor samples from patient No.71 PT71U95Av2
|
PT71, tumor samples from patient No.71
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152963
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152963/suppl/GSM152963.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152964 | GPL8300 |
|
Tumor samples from patient No.72 PT72U95Av2
|
PT72, tumor samples from patient No.72
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152964
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152964/suppl/GSM152964.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152965 | GPL8300 |
|
Tumor samples from patient No.73 PT73U95Av2
|
PT73, tumor samples from patient No.73
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152965
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152965/suppl/GSM152965.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152966 | GPL8300 |
|
Tumor samples from patient No.74 PT74U95Av2
|
PT74, tumor samples from patient No.74
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152966
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152966/suppl/GSM152966.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152967 | GPL8300 |
|
Tumor samples from patient No.75 PT75U95Av2
|
PT75, tumor samples from patient No.75
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152967
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152967/suppl/GSM152967.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152968 | GPL8300 |
|
Tumor samples from patient No.76 PT76U95Av2
|
PT76, tumor samples from patient No.76
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152968
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152968/suppl/GSM152968.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152969 | GPL8300 |
|
Tumor samples from patient No.80 PT80U95Av2
|
PT80, tumor samples from patient No.80
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152969
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152969/suppl/GSM152969.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152970 | GPL8300 |
|
Tumor samples from patient No.81 PT81U95Av2
|
PT81, tumor samples from patient No.81
|
Tissue: primary prostate tumor
Tumor stage: T4
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152970
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152970/suppl/GSM152970.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152971 | GPL8300 |
|
Tumor samples from patient No.82 PT82U95Av2
|
PT82, tumor samples from patient No.82
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152971
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152971/suppl/GSM152971.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152972 | GPL8300 |
|
Tumor samples from patient No.83 PT83U95Av2
|
PT83, tumor samples from patient No.83
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152972
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152972/suppl/GSM152972.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152973 | GPL8300 |
|
Tumor samples from patient No.84 PT84U95Av2
|
PT84, tumor samples from patient No.84
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152973
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152973/suppl/GSM152973.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152974 | GPL8300 |
|
Tumor samples from patient No.85 PT85U95Av2
|
PT85, tumor samples from patient No.85
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152974
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152974/suppl/GSM152974.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152975 | GPL8300 |
|
Tumor samples from patient No.86 PT86U95Av2
|
PT86, tumor samples from patient No.86
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152975
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152975/suppl/GSM152975.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152976 | GPL8300 |
|
Tumor samples from patient No.87 PT87U95Av2
|
PT87, tumor samples from patient No.87
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152976
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152976/suppl/GSM152976.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152977 | GPL8300 |
|
Tumor samples from patient No.88 PT88U95Av2
|
PT88, tumor samples from patient No.88
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152977
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152977/suppl/GSM152977.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152978 | GPL8300 |
|
Tumor samples from patient No.89 PT89U95Av2
|
PT89, tumor samples from patient No.89
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152978
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152978/suppl/GSM152978.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152979 | GPL8300 |
|
Tumor samples from patient No.90 PT90U95Av2
|
PT90, tumor samples from patient No.90
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152979
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152979/suppl/GSM152979.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152980 | GPL8300 |
|
Tumor samples from patient No.91 PT91U95Av2
|
PT91, tumor samples from patient No.91
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152980
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152980/suppl/GSM152980.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152981 | GPL8300 |
|
Tumor samples from patient No.92 PT92U95Av2
|
PT92, tumor samples from patient No.92
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152981
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152981/suppl/GSM152981.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152982 | GPL8300 |
|
Tumor samples from patient No.93 PT93U95Av2
|
PT93, tumor samples from patient No.93
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152982
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152982/suppl/GSM152982.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152983 | GPL8300 |
|
Tumor samples from patient No.94 PT94U95Av2
|
PT94, tumor samples from patient No.94
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152983
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152983/suppl/GSM152983.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152984 | GPL8300 |
|
Tumor samples from patient No.95 PT95U95Av2
|
PT95, tumor samples from patient No.95
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152984
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152984/suppl/GSM152984.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152985 | GPL8300 |
|
Tumor samples from patient No.96 PT96U95Av2
|
PT96, tumor samples from patient No.96
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152985
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152985/suppl/GSM152985.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152986 | GPL8300 |
|
Tumor samples from patient No.97 PT97U95Av2
|
PT97, tumor samples from patient No.97
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152986
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152986/suppl/GSM152986.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152987 | GPL8300 |
|
Tumor samples from patient No.99 PT99U95Av2
|
PT99, tumor samples from patient No.99
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152987
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152987/suppl/GSM152987.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152988 | GPL8300 |
|
Tumor samples from patient No.100 PT100U95Av2
|
PT100, tumor samples from patient No.100
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152988
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152988/suppl/GSM152988.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152989 | GPL8300 |
|
Tumor samples from patient No.101 PT101U95Av2
|
PT101, tumor samples from patient No.101
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152989
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152989/suppl/GSM152989.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152990 | GPL8300 |
|
Tumor samples from patient No.105 PT105U95Av2
|
PT105, tumor samples from patient No.105
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152990
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152990/suppl/GSM152990.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152991 | GPL8300 |
|
Tumor samples from patient No.107 PT107U95Av2
|
PT107, tumor samples from patient No.107
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152991
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152991/suppl/GSM152991.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM152992 | GPL92 |
|
Tumor samples from patient No.34 PT34U95B
|
PT34, tumor samples from patient No.34
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152992
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152992/suppl/GSM152992.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152993 | GPL92 |
|
Tumor samples from patient No.35 PT35U95B
|
PT35, tumor samples from patient No.35
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152993
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152993/suppl/GSM152993.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152994 | GPL92 |
|
Tumor samples from patient No.36 PT36U95B
|
PT36, tumor samples from patient No.36
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152994
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152994/suppl/GSM152994.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152995 | GPL92 |
|
Tumor samples from patient No.38 PT38U95B
|
PT38, tumor samples from patient No.38
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152995
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152995/suppl/GSM152995.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152996 | GPL92 |
|
Tumor samples from patient No.39 PT39U95B
|
PT39, tumor samples from patient No.39
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152996
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152996/suppl/GSM152996.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152997 | GPL92 |
|
Tumor samples from patient No.40 PT40U95B
|
PT40, tumor samples from patient No.40
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152997
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152997/suppl/GSM152997.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152998 | GPL92 |
|
Tumor samples from patient No.41 PT41U95B
|
PT41, tumor samples from patient No.41
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152998
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152998/suppl/GSM152998.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM152999 | GPL92 |
|
Tumor samples from patient No.42 PT42U95B
|
PT42, tumor samples from patient No.42
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM152999
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM152nnn/GSM152999/suppl/GSM152999.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153000 | GPL92 |
|
Tumor samples from patient No.43 PT43U95B
|
PT43, tumor samples from patient No.43
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153000
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153000/suppl/GSM153000.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153001 | GPL92 |
|
Tumor samples from patient No.44 PT44U95B
|
PT44, tumor samples from patient No.44
|
Tissue:primary prostate tumor
Tumor stage: T4a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153001
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153001/suppl/GSM153001.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153002 | GPL92 |
|
Tumor samples from patient No.45 PT45U95B
|
PT45, tumor samples from patient No.45
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153002
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153002/suppl/GSM153002.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153003 | GPL92 |
|
Tumor samples from patient No.46 PT46U95B
|
PT46, tumor samples from patient No.46
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153003
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153003/suppl/GSM153003.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153004 | GPL92 |
|
Tumor samples from patient No.47 PT47U95B
|
PT47, tumor samples from patient No.47
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153004
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153004/suppl/GSM153004.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153005 | GPL92 |
|
Tumor samples from patient No.48 PT48U95B
|
PT48, tumor samples from patient No.48
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153005
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153005/suppl/GSM153005.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153006 | GPL92 |
|
Tumor samples from patient No.50 PT50U95B
|
PT50, tumor samples from patient No.50
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153006
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153006/suppl/GSM153006.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153007 | GPL92 |
|
Tumor samples from patient No.51 PT51U95B
|
PT51, tumor samples from patient No.51
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153007
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153007/suppl/GSM153007.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153008 | GPL92 |
|
Tumor samples from patient No.52 PT52U95B
|
PT52, tumor samples from patient No.52
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153008
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153008/suppl/GSM153008.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153009 | GPL92 |
|
Tumor samples from patient No.53 PT53U95B
|
PT53, tumor samples from patient No.53
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153009
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153009/suppl/GSM153009.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153010 | GPL92 |
|
Tumor samples from patient No.54 PT54U95B
|
PT54, tumor samples from patient No.54
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153010
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153010/suppl/GSM153010.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153011 | GPL92 |
|
Tumor samples from patient No.55 PT55U95B
|
PT55, tumor samples from patient No.55
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153011
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153011/suppl/GSM153011.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153012 | GPL92 |
|
Tumor samples from patient No.56 PT56U95B
|
PT56, tumor samples from patient No.56
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153012
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153012/suppl/GSM153012.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153013 | GPL92 |
|
Tumor samples from patient No.57 PT57U95B
|
PT57, tumor samples from patient No.57
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153013
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153013/suppl/GSM153013.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153014 | GPL92 |
|
Tumor samples from patient No.58 PT58U95B
|
PT58, tumor samples from patient No.58
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153014
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153014/suppl/GSM153014.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153015 | GPL92 |
|
Tumor samples from patient No.60 PT60U95B
|
PT60, tumor samples from patient No.60
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153015
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153015/suppl/GSM153015.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153016 | GPL92 |
|
Tumor samples from patient No.61 PT61U95B
|
PT61, tumor samples from patient No.61
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153016
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153016/suppl/GSM153016.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153017 | GPL92 |
|
Tumor samples from patient No.62 PT62U95B
|
PT62, tumor samples from patient No.62
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153017
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153017/suppl/GSM153017.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153018 | GPL92 |
|
Tumor samples from patient No.63 PT63U95B
|
PT63, tumor samples from patient No.63
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153018
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153018/suppl/GSM153018.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153019 | GPL92 |
|
Tumor samples from patient No.64 PT64U95B
|
PT64, tumor samples from patient No.64
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153019
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153019/suppl/GSM153019.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153020 | GPL92 |
|
Tumor samples from patient No.65 PT65U95B
|
PT65, tumor samples from patient No.65
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153020
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153020/suppl/GSM153020.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153021 | GPL92 |
|
Tumor samples from patient No.66 PT66U95B
|
PT66, tumor samples from patient No.66
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153021
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153021/suppl/GSM153021.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153022 | GPL92 |
|
Tumor samples from patient No.67 PT67U95B
|
PT67, tumor samples from patient No.67
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153022
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153022/suppl/GSM153022.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153023 | GPL92 |
|
Tumor samples from patient No.68 PT68U95B
|
PT68, tumor samples from patient No.68
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153023
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153023/suppl/GSM153023.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153024 | GPL92 |
|
Tumor samples from patient No.69 PT69U95B
|
PT69, tumor samples from patient No.69
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153024
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153024/suppl/GSM153024.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153025 | GPL92 |
|
Tumor samples from patient No.70 PT70U95B
|
PT70, tumor samples from patient No.70
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153025
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153025/suppl/GSM153025.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153026 | GPL92 |
|
Tumor samples from patient No.71 PT71U95B
|
PT71, tumor samples from patient No.71
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153026
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153026/suppl/GSM153026.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153027 | GPL92 |
|
Tumor samples from patient No.72 PT72U95B
|
PT72, tumor samples from patient No.72
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153027
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153027/suppl/GSM153027.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153028 | GPL92 |
|
Tumor samples from patient No.73 PT73U95B
|
PT73, tumor samples from patient No.73
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153028
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153028/suppl/GSM153028.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153029 | GPL92 |
|
Tumor samples from patient No.74 PT74U95B
|
PT74, tumor samples from patient No.74
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153029
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153029/suppl/GSM153029.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153030 | GPL92 |
|
Tumor samples from patient No.75 PT75U95B
|
PT75, tumor samples from patient No.75
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153030
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153030/suppl/GSM153030.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153031 | GPL92 |
|
Tumor samples from patient No.76 PT76U95B
|
PT76, tumor samples from patient No.76
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153031
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153031/suppl/GSM153031.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153032 | GPL92 |
|
Tumor samples from patient No.80 PT80U95B
|
PT80, tumor samples from patient No.80
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153032
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153032/suppl/GSM153032.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153033 | GPL92 |
|
Tumor samples from patient No.81 PT81U95B
|
PT81, tumor samples from patient No.81
|
Tissue: primary prostate tumor
Tumor stage: T4
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153033
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153033/suppl/GSM153033.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153034 | GPL92 |
|
Tumor samples from patient No.82 PT82U95B
|
PT82, tumor samples from patient No.82
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153034
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153034/suppl/GSM153034.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153035 | GPL92 |
|
Tumor samples from patient No.83 PT83U95B
|
PT83, tumor samples from patient No.83
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153035
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153035/suppl/GSM153035.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153036 | GPL92 |
|
Tumor samples from patient No.84 PT84U95B
|
PT84, tumor samples from patient No.84
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153036
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153036/suppl/GSM153036.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153037 | GPL92 |
|
Tumor samples from patient No.85 PT85U95B
|
PT85, tumor samples from patient No.85
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153037
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153037/suppl/GSM153037.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153038 | GPL92 |
|
Tumor samples from patient No.86 PT86U95B
|
PT86, tumor samples from patient No.86
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153038
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153038/suppl/GSM153038.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153039 | GPL92 |
|
Tumor samples from patient No.87 PT87U95B
|
PT87, tumor samples from patient No.87
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153039
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153039/suppl/GSM153039.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153040 | GPL92 |
|
Tumor samples from patient No.88 PT88U95B
|
PT88, tumor samples from patient No.88
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153040
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153040/suppl/GSM153040.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153041 | GPL92 |
|
Tumor samples from patient No.89 PT89U95B
|
PT89, tumor samples from patient No.89
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153041
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153041/suppl/GSM153041.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153042 | GPL92 |
|
Tumor samples from patient No.90 PT90U95B
|
PT90, tumor samples from patient No.90
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153042
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153042/suppl/GSM153042.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153043 | GPL92 |
|
Tumor samples from patient No.91 PT91U95B
|
PT91, tumor samples from patient No.91
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153043
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153043/suppl/GSM153043.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153044 | GPL92 |
|
Tumor samples from patient No.93 PT93U95B
|
PT93, tumor samples from patient No.93
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153044
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153044/suppl/GSM153044.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153045 | GPL92 |
|
Tumor samples from patient No.94 PT94U95B
|
PT94, tumor samples from patient No.94
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153045
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153045/suppl/GSM153045.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153046 | GPL92 |
|
Tumor samples from patient No.95 PT95U95B
|
PT95, tumor samples from patient No.95
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153046
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153046/suppl/GSM153046.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153047 | GPL92 |
|
Tumor samples from patient No.96 PT96U95B
|
PT96, tumor samples from patient No.96
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153047
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153047/suppl/GSM153047.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153048 | GPL92 |
|
Tumor samples from patient No.97 PT97U95B
|
PT97, tumor samples from patient No.97
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153048
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153048/suppl/GSM153048.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153049 | GPL92 |
|
Tumor samples from patient No.99 PT99U95B
|
PT99, tumor samples from patient No.99
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153049
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153049/suppl/GSM153049.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153050 | GPL92 |
|
Tumor samples from patient No.100 PT100U95B
|
PT100, tumor samples from patient No.100
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153050
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153050/suppl/GSM153050.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153051 | GPL92 |
|
Tumor samples from patient No.101 PT101U95B
|
PT101, tumor samples from patient No.101
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153051
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153051/suppl/GSM153051.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153052 | GPL92 |
|
Tumor samples from patient No.105 PT105U95B
|
PT105, tumor samples from patient No.105
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153052
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153052/suppl/GSM153052.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153053 | GPL92 |
|
Tumor samples from patient No.107 PT107U95B
|
PT107, tumor samples from patient No.107
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153053
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153053/suppl/GSM153053.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM153054 | GPL93 |
|
Tumor samples from patient No.34 PT34U95C
|
PT34, tumor samples from patient No.34
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153054
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153054/suppl/GSM153054.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153055 | GPL93 |
|
Tumor samples from patient No.35 PT35U95C
|
PT35, tumor samples from patient No.35
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153055
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153055/suppl/GSM153055.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153056 | GPL93 |
|
Tumor samples from patient No.36 PT36U95C
|
PT36, tumor samples from patient No.36
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153056
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153056/suppl/GSM153056.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153057 | GPL93 |
|
Tumor samples from patient No.38 PT38U95C
|
PT38, tumor samples from patient No.38
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153057
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153057/suppl/GSM153057.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153058 | GPL93 |
|
Tumor samples from patient No.39 PT39U95C
|
PT39, tumor samples from patient No.39
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153058
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153058/suppl/GSM153058.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153059 | GPL93 |
|
Tumor samples from patient No.40 PT40U95C
|
PT40, tumor samples from patient No.40
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153059
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153059/suppl/GSM153059.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153060 | GPL93 |
|
Tumor samples from patient No.41 PT41U95C
|
PT41, tumor samples from patient No.41
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153060
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153060/suppl/GSM153060.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153061 | GPL93 |
|
Tumor samples from patient No.42 PT42U95C
|
PT42, tumor samples from patient No.42
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153061
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153061/suppl/GSM153061.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153062 | GPL93 |
|
Tumor samples from patient No.43 PT43U95C
|
PT43, tumor samples from patient No.43
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153062
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153062/suppl/GSM153062.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153063 | GPL93 |
|
Tumor samples from patient No.44 PT44U95C
|
PT44, tumor samples from patient No.44
|
Tissue:primary prostate tumor
Tumor stage: T4a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153063
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153063/suppl/GSM153063.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153064 | GPL93 |
|
Tumor samples from patient No.45 PT45U95C
|
PT45, tumor samples from patient No.45
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153064
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153064/suppl/GSM153064.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153065 | GPL93 |
|
Tumor samples from patient No.46 PT46U95C
|
PT46, tumor samples from patient No.46
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153065
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153065/suppl/GSM153065.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153066 | GPL93 |
|
Tumor samples from patient No.47 PT47U95C
|
PT47, tumor samples from patient No.47
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153066
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153066/suppl/GSM153066.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153067 | GPL93 |
|
Tumor samples from patient No.48 PT48U95C
|
PT48, tumor samples from patient No.48
|
Tissue:primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153067
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153067/suppl/GSM153067.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153068 | GPL93 |
|
Tumor samples from patient No.50 PT50U95C
|
PT50, tumor samples from patient No.50
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153068
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153068/suppl/GSM153068.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153069 | GPL93 |
|
Tumor samples from patient No.51 PT51U95C
|
PT51, tumor samples from patient No.51
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153069
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153069/suppl/GSM153069.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153070 | GPL93 |
|
Tumor samples from patient No.52 PT52U95C
|
PT52, tumor samples from patient No.52
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153070
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153070/suppl/GSM153070.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153071 | GPL93 |
|
Tumor samples from patient No.53 PT53U95C
|
PT53, tumor samples from patient No.53
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153071
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153071/suppl/GSM153071.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153072 | GPL93 |
|
Tumor samples from patient No.54 PT54U95C
|
PT54, tumor samples from patient No.54
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153072
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153072/suppl/GSM153072.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153073 | GPL93 |
|
Tumor samples from patient No.55 PT55U95C
|
PT55, tumor samples from patient No.55
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153073
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153073/suppl/GSM153073.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153074 | GPL93 |
|
Tumor samples from patient No.56 PT56U95C
|
PT56, tumor samples from patient No.56
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153074
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153074/suppl/GSM153074.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153075 | GPL93 |
|
Tumor samples from patient No.57 PT57U95C
|
PT57, tumor samples from patient No.57
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153075
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153075/suppl/GSM153075.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153076 | GPL93 |
|
Tumor samples from patient No.58 PT58U95C
|
PT58, tumor samples from patient No.58
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153076
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153076/suppl/GSM153076.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153077 | GPL93 |
|
Tumor samples from patient No.60 PT60U95C
|
PT60, tumor samples from patient No.60
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153077
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153077/suppl/GSM153077.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153078 | GPL93 |
|
Tumor samples from patient No.61 PT61U95C
|
PT61, tumor samples from patient No.61
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153078
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153078/suppl/GSM153078.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153079 | GPL93 |
|
Tumor samples from patient No.62 PT62U95C
|
PT62, tumor samples from patient No.62
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153079
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153079/suppl/GSM153079.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153080 | GPL93 |
|
Tumor samples from patient No.63 PT63U95C
|
PT63, tumor samples from patient No.63
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153080
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153080/suppl/GSM153080.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153081 | GPL93 |
|
Tumor samples from patient No.64 PT64U95C
|
PT64, tumor samples from patient No.64
|
Tissue: primary prostate tumor
Tumor stage: T2a
Gleason Grade: 5
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153081
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153081/suppl/GSM153081.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153082 | GPL93 |
|
Tumor samples from patient No.65 PT65U95C
|
PT65, tumor samples from patient No.65
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153082
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153082/suppl/GSM153082.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153083 | GPL93 |
|
Tumor samples from patient No.66 PT66U95C
|
PT66, tumor samples from patient No.66
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153083
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153083/suppl/GSM153083.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153084 | GPL93 |
|
Tumor samples from patient No.67 PT67U95C
|
PT67, tumor samples from patient No.67
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153084
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153084/suppl/GSM153084.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153085 | GPL93 |
|
Tumor samples from patient No.68 PT68U95C
|
PT68, tumor samples from patient No.68
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153085
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153085/suppl/GSM153085.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153086 | GPL93 |
|
Tumor samples from patient No.69 PT69U95C
|
PT69, tumor samples from patient No.69
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153086
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153086/suppl/GSM153086.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153087 | GPL93 |
|
Tumor samples from patient No.70 PT70U95C
|
PT70, tumor samples from patient No.70
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153087
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153087/suppl/GSM153087.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153088 | GPL93 |
|
Tumor samples from patient No.71 PT71U95C
|
PT71, tumor samples from patient No.71
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153088
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153088/suppl/GSM153088.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153089 | GPL93 |
|
Tumor samples from patient No.72 PT72U95C
|
PT72, tumor samples from patient No.72
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153089
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153089/suppl/GSM153089.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153090 | GPL93 |
|
Tumor samples from patient No.73 PT73U95C
|
PT73, tumor samples from patient No.73
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153090
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153090/suppl/GSM153090.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153091 | GPL93 |
|
Tumor samples from patient No.74 PT74U95C
|
PT74, tumor samples from patient No.74
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153091
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153091/suppl/GSM153091.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153092 | GPL93 |
|
Tumor samples from patient No.75 PT75U95C
|
PT75, tumor samples from patient No.75
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153092
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153092/suppl/GSM153092.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153093 | GPL93 |
|
Tumor samples from patient No.76 PT76U95C
|
PT76, tumor samples from patient No.76
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153093
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153093/suppl/GSM153093.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153094 | GPL93 |
|
Tumor samples from patient No.80 PT80U95C
|
PT80, tumor samples from patient No.80
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153094
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153094/suppl/GSM153094.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153095 | GPL93 |
|
Tumor samples from patient No.81 PT81U95C
|
PT81, tumor samples from patient No.81
|
Tissue: primary prostate tumor
Tumor stage: T4
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153095
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153095/suppl/GSM153095.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153096 | GPL93 |
|
Tumor samples from patient No.82 PT82U95C
|
PT82, tumor samples from patient No.82
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153096
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153096/suppl/GSM153096.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153097 | GPL93 |
|
Tumor samples from patient No.83 PT83U95C
|
PT83, tumor samples from patient No.83
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153097
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153097/suppl/GSM153097.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153098 | GPL93 |
|
Tumor samples from patient No.84 PT84U95C
|
PT84, tumor samples from patient No.84
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153098
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153098/suppl/GSM153098.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153099 | GPL93 |
|
Tumor samples from patient No.85 PT85U95C
|
PT85, tumor samples from patient No.85
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153099
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153099/suppl/GSM153099.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153100 | GPL93 |
|
Tumor samples from patient No.86 PT86U95C
|
PT86, tumor samples from patient No.86
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153100
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153100/suppl/GSM153100.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153101 | GPL93 |
|
Tumor samples from patient No.87 PT87U95C
|
PT87, tumor samples from patient No.87
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153101
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153101/suppl/GSM153101.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153102 | GPL93 |
|
Tumor samples from patient No.88 PT88U95C
|
PT88, tumor samples from patient No.88
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153102
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153102/suppl/GSM153102.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153103 | GPL93 |
|
Tumor samples from patient No.89 PT89U95C
|
PT89, tumor samples from patient No.89
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153103
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153103/suppl/GSM153103.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153104 | GPL93 |
|
Tumor samples from patient No.90 PT90U95C
|
PT90, tumor samples from patient No.90
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153104
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153104/suppl/GSM153104.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153105 | GPL93 |
|
Tumor samples from patient No.91 PT91U95C
|
PT91, tumor samples from patient No.91
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153105
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153105/suppl/GSM153105.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153106 | GPL93 |
|
Tumor samples from patient No.93 PT93U95C
|
PT93, tumor samples from patient No.93
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153106
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153106/suppl/GSM153106.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153107 | GPL93 |
|
Tumor samples from patient No.94 PT94U95C
|
PT94, tumor samples from patient No.94
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153107
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153107/suppl/GSM153107.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153108 | GPL93 |
|
Tumor samples from patient No.95 PT95U95C
|
PT95, tumor samples from patient No.95
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153108
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153108/suppl/GSM153108.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153109 | GPL93 |
|
Tumor samples from patient No.96 PT96U95C
|
PT96, tumor samples from patient No.96
|
Tissue: primary prostate tumor
Tumor stage: T3b
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153109
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153109/suppl/GSM153109.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153110 | GPL93 |
|
Tumor samples from patient No.97 PT97U95C
|
PT97, tumor samples from patient No.97
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153110
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153110/suppl/GSM153110.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153111 | GPL93 |
|
Tumor samples from patient No.99 PT99U95C
|
PT99, tumor samples from patient No.99
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153111
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153111/suppl/GSM153111.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153112 | GPL93 |
|
Tumor samples from patient No.100 PT100U95C
|
PT100, tumor samples from patient No.100
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 9
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153112
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153112/suppl/GSM153112.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153113 | GPL93 |
|
Tumor samples from patient No.101 PT101U95C
|
PT101, tumor samples from patient No.101
|
Tissue: primary prostate tumor
Tumor stage: T2b
Gleason Grade: 8
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153113
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153113/suppl/GSM153113.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM153114 | GPL93 |
|
Tumor samples from patient No.107 PT107U95C
|
PT107, tumor samples from patient No.107
|
Tissue: primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM153114
| Sample_status | Public on Jan 16 2007
| Sample_submission_date | Dec 22 2006
| Sample_last_update_date | Jan 16 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM153nnn/GSM153114/suppl/GSM153114.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM187524 | GPL8300 |
|
Tumor samples from patient No.10 PT10U95Av2
|
PT10, tumor samples from patient No.10
|
Tissue:primary prostate tumor
Tumor stage: T2a
Gleason Grade: 4
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187524
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187524/suppl/GSM187524.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM187525 | GPL8300 |
|
Tumor samples from patient No.13 PT13U95Av2
|
PT13, tumor samples from patient No.13
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187525
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187525/suppl/GSM187525.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM187526 | GPL8300 |
|
Tumor samples from patient No.16 PT16U95Av2
|
PT16, tumor samples from patient No.16
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187526
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187526/suppl/GSM187526.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM187527 | GPL8300 |
|
Tumor samples from patient No.20 PT20U95Av2
|
PT20, tumor samples from patient No.20
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187527
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | Mar 16 2009
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95Av2 array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL8300
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187527/suppl/GSM187527.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12625
| |
|
GSM187528 | GPL92 |
|
Tumor samples from patient No.10 PT10U95B
|
PT10, tumor samples from patient No.10
|
Tissue:primary prostate tumor
Tumor stage: T2a
Gleason Grade: 4
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187528
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187528/suppl/GSM187528.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM187529 | GPL92 |
|
Tumor samples from patient No.13 PT13U95B
|
PT13, tumor samples from patient No.13
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187529
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187529/suppl/GSM187529.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM187530 | GPL92 |
|
Tumor samples from patient No.16 PT16U95B
|
PT16, tumor samples from patient No.16
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187530
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187530/suppl/GSM187530.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM187531 | GPL92 |
|
Tumor samples from patient No.20 PT20U95B
|
PT20, tumor samples from patient No.20
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187531
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95B array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL92
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187531/suppl/GSM187531.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12553
| |
|
GSM187532 | GPL93 |
|
Tumor samples from patient No.10 PT10U95C
|
PT10, tumor samples from patient No.10
|
Tissue:primary prostate tumor
Tumor stage: T2a
Gleason Grade: 4
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187532
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187532/suppl/GSM187532.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM187533 | GPL93 |
|
Tumor samples from patient No.13 PT13U95C
|
PT13, tumor samples from patient No.13
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187533
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187533/suppl/GSM187533.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM187534 | GPL93 |
|
Tumor samples from patient No.16 PT16U95C
|
PT16, tumor samples from patient No.16
|
Tissue:primary prostate tumor
Tumor stage: T2b
Gleason Grade: 6
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187534
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187534/suppl/GSM187534.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
GSM187535 | GPL93 |
|
Tumor samples from patient No.20 PT20U95C
|
PT20, tumor samples from patient No.20
|
Tissue:primary prostate tumor
Tumor stage: T3a
Gleason Grade: 7
|
Gene expression data from primary prostate cancer
|
Sample_geo_accession | GSM187535
| Sample_status | Public on May 08 2007
| Sample_submission_date | May 07 2007
| Sample_last_update_date | May 08 2007
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_treatment_protocol_ch1 | Fresh prostate tissues were recovered immediately after surgical removal. Tissues were dissected/trimmed to obtain pure tumor then snap frozen in liquid nitrogen within 30 mintues of excision and stored in -80C untill RNA extraction. An H&E stained frozen section of each sample was evaluated by a pathologist, to determine epithelial and stromal content and verify the presence of tumor in the sample. Only tumor tissues with less than 30% of tromal components were selected.
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Total RNA was extracted with Qiagen Rneasy kit according to the manufacturer's instructions.
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HG-U95C array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 200.
| Sample_platform_id | GPL93
| Sample_contact_name | Federico,Alberto,Monzon
| Sample_contact_email | famonzon@tmhs.org
| Sample_contact_laboratory | Molecular Diagnostics
| Sample_contact_department | Pathology
| Sample_contact_institute | The Methodist Hospital
| Sample_contact_address | 6565 Fannin St, MS205
| Sample_contact_city | Houston
| Sample_contact_state | TX
| Sample_contact_zip/postal_code | 77030
| Sample_contact_country | USA
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM187nnn/GSM187535/suppl/GSM187535.CEL.gz
| Sample_series_id | GSE6606
| Sample_series_id | GSE6919
| Sample_data_row_count | 12646
| |
|
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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Select GSMs and click on "Add groups" |
Enter the group name here: |
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