Search results for the GEO ID: GSE6367 |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM135610 | GPL8300 |
|
Human_TK2T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135610
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135610/suppl/GSM135610.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135612 | GPL8300 |
|
Human_TK3T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135612
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135612/suppl/GSM135612.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135614 | GPL8300 |
|
Human_TK4T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135614
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135614/suppl/GSM135614.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135616 | GPL8300 |
|
Human_TK5T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135616
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135616/suppl/GSM135616.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135618 | GPL8300 |
|
Human_TK6T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135618
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135618/suppl/GSM135618.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135620 | GPL8300 |
|
Human_TK9T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135620
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135620/suppl/GSM135620.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135621 | GPL8300 |
|
Human_TK10T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135621
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135621/suppl/GSM135621.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135622 | GPL8300 |
|
Human_TK11T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135622
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135622/suppl/GSM135622.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135623 | GPL8300 |
|
Human_TK12T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135623
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135623/suppl/GSM135623.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135624 | GPL8300 |
|
Human_TK13T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135624
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135624/suppl/GSM135624.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135625 | GPL8300 |
|
Human_TK14T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135625
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135625/suppl/GSM135625.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135626 | GPL8300 |
|
Human_TK15T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135626
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135626/suppl/GSM135626.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135627 | GPL8300 |
|
Human_TK16T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135627
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135627/suppl/GSM135627.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135628 | GPL8300 |
|
Human_TK17T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135628
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135628/suppl/GSM135628.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135629 | GPL8300 |
|
Human_TK18T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135629
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135629/suppl/GSM135629.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135630 | GPL8300 |
|
Human_TK19T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135630
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135630/suppl/GSM135630.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135631 | GPL8300 |
|
Human_TK20T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135631
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135631/suppl/GSM135631.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135632 | GPL8300 |
|
Human_TK21T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135632
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135632/suppl/GSM135632.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135633 | GPL8300 |
|
Human_TK22T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135633
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135633/suppl/GSM135633.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135634 | GPL8300 |
|
Human_TK23T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135634
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135634/suppl/GSM135634.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135635 | GPL8300 |
|
Human_TK24T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135635
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135635/suppl/GSM135635.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135636 | GPL8300 |
|
Human_TK25T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135636
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135636/suppl/GSM135636.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135637 | GPL8300 |
|
Human_TK26T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135637
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135637/suppl/GSM135637.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135638 | GPL8300 |
|
Human_TK27T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135638
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135638/suppl/GSM135638.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135639 | GPL8300 |
|
Human_TK28T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135639
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135639/suppl/GSM135639.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135640 | GPL8300 |
|
Human_TK29T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135640
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135640/suppl/GSM135640.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135641 | GPL8300 |
|
Human_TK30T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135641
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135641/suppl/GSM135641.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135642 | GPL8300 |
|
Human_TK31T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135642
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135642/suppl/GSM135642.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135643 | GPL8300 |
|
Human_TK32T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135643
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135643/suppl/GSM135643.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135644 | GPL8300 |
|
Human_TK33T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135644
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135644/suppl/GSM135644.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135645 | GPL8300 |
|
Human_TK34T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135645
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135645/suppl/GSM135645.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135646 | GPL8300 |
|
Human_TK35T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135646
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135646/suppl/GSM135646.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135647 | GPL8300 |
|
Human_TK36T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135647
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135647/suppl/GSM135647.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135648 | GPL8300 |
|
Human_TK37T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135648
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135648/suppl/GSM135648.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135649 | GPL8300 |
|
Human_TK38T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135649
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135649/suppl/GSM135649.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135650 | GPL8300 |
|
Human_TK39T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135650
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135650/suppl/GSM135650.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135651 | GPL8300 |
|
Human_TK40T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135651
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135651/suppl/GSM135651.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135652 | GPL8300 |
|
Human_TK41T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135652
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135652/suppl/GSM135652.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135653 | GPL8300 |
|
Human_TK42T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135653
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135653/suppl/GSM135653.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
GSM135654 | GPL8300 |
|
Human_TK43T_clinically isolated tissue
|
human breast cancer
|
clinical isolate, flash-frozen
|
Gene expression data from embryos younger than nuclear cycle 9, i.e. before zygotic genome activation.
|
Sample_geo_accession | GSM135654
| Sample_status | Public on Mar 14 2009
| Sample_submission_date | Sep 11 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 | Tissues were surgically isolated and were immediately frozen in liquid nitrogen. Tissues were lysed and total RNA was extracted using the Sepasol-I (WAKO)
| Sample_growth_protocol_ch1 | not received any pre-operative adjuvant hormone or chemotherapy
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Qiagen RNeasy kit
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Enzo Biotin labeling
| Sample_hyb_protocol | According to standard Affymetrix protocol. 15ug of cRNA was fragmented, fragmented product was checked on gel(average size 100nt), Hybridization cocktail added and hybed on HG_U133A arrays. Washed with non-stringent wash buffer (A) and stained with SAPE solution.
| 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 100.
| Sample_platform_id | GPL8300
| Sample_contact_name | shinobu,,Masuda
| Sample_contact_email | masuda.shinobu@nihon-u.ac.jp
| Sample_contact_phone | 81-3-3972-8111
| Sample_contact_fax | 81-3-3972-8163
| Sample_contact_department | pathology
| Sample_contact_institute | Nihon Univeristy School of Medicine
| Sample_contact_address | 30-1 Ohyaguchikami-cho
| Sample_contact_city | Itabashi
| Sample_contact_state | Tokyo
| Sample_contact_zip/postal_code | 173-8610
| Sample_contact_country | Japan
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM135nnn/GSM135654/suppl/GSM135654.CEL.gz
| Sample_series_id | GSE6367
| Sample_data_row_count | 12623
| |
|
|
|
Make groups for comparisons |
(2 groups will be compared at a time) |
|
Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|