Search results for the GEO ID: GSE12606  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM315855 | GPL570 |
|
kidney_normal tissue
|
pooled normal kidney tissue
|
12 kidneys pooled
|
Purchased from Clontech.
|
| Sample_geo_accession | GSM315855
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315855/suppl/GSM315855.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315855/suppl/GSM315855.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315856 | GPL570 |
|
RCC343_normal tissue
|
normal kidney tissue
|
Gender: male
Date of birth: 03/02/1942
|
HLA typing: A*01, A*31, B*08, B*15, DRB1*03, DRB1*04, DRB3, DRB4
|
| Sample_geo_accession | GSM315856
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315856/suppl/GSM315856.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315856/suppl/GSM315856.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315857 | GPL570 |
|
RCC343_tumor tissue
|
clear cell renal cell carcinoma
|
Gender: male
Date of birth: 03/02/1942
|
HLA typing: A*01, A*31, B*08, B*15, DRB1*03, DRB1*04, DRB3, DRB4
|
| Sample_geo_accession | GSM315857
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315857/suppl/GSM315857.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315857/suppl/GSM315857.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315858 | GPL570 |
|
RCC343_metastatic tissue
|
metastasis clear cell renal cell carcinoma
|
Gender: male
Date of birth: 03/02/1942
|
HLA typing: A*01, A*31, B*08, B*15, DRB1*03, DRB1*04, DRB3, DRB4
|
| Sample_geo_accession | GSM315858
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315858/suppl/GSM315858.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315858/suppl/GSM315858.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315859 | GPL570 |
|
RCC377_normal tissue
|
normal kidney tissue
|
Gender: male
Date of birth: 26/06/1936
|
HLA typing: A*01, A*03, B*07, DRB1*03, DRB1*11, DRB3
|
| Sample_geo_accession | GSM315859
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315859/suppl/GSM315859.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315859/suppl/GSM315859.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315860 | GPL570 |
|
RCC377_tumor tissue
|
clear cell renal cell carcinoma
|
Gender: male
Date of birth: 26/06/1936
|
HLA typing: A*01, A*03, B*07, DRB1*03, DRB1*11, DRB3
|
| Sample_geo_accession | GSM315860
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315860/suppl/GSM315860.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315860/suppl/GSM315860.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315861 | GPL570 |
|
RCC377_metastatic tissue
|
metastasis clear cell renal cell carcinoma
|
Gender: male
Date of birth: 26/06/1936
|
HLA typing: A*01, A*03, B*07, DRB1*03, DRB1*11, DRB3
|
| Sample_geo_accession | GSM315861
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315861/suppl/GSM315861.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315861/suppl/GSM315861.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315862 | GPL570 |
|
RCC399_normal tissue
|
normal kidney tissue
|
Gender: male
Date of birth: 08/04/1952
|
HLA typing: A*01, A*02, B*08, B*50, DRB1*03, DRB3
|
| Sample_geo_accession | GSM315862
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315862/suppl/GSM315862.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315862/suppl/GSM315862.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315863 | GPL570 |
|
RCC399_tumor tissue
|
clear cell renal cell carcinoma
|
Gender: male
Date of birth: 08/04/1952
|
HLA typing: A*01, A*02, B*08, B*50, DRB1*03, DRB3
|
| Sample_geo_accession | GSM315863
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315863/suppl/GSM315863.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315863/suppl/GSM315863.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
| | |
|
GSM315864 | GPL570 |
|
RCC399_metastatic tissue
|
metastasis clear cell renal cell carcinoma
|
Gender: male
Date of birth: 08/04/1952
|
HLA typing: A*01, A*02, B*08, B*50, DRB1*03, DRB3
|
| Sample_geo_accession | GSM315864
| | Sample_status | Public on Sep 03 2008
| | Sample_submission_date | Aug 28 2008
| | Sample_last_update_date | Sep 02 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tissues were shock-frozen in liquid nitrogen directly after surgery.
| | Sample_growth_protocol_ch1 | Primary human tissue.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol extraction of total RNA was performed 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 8 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 Array. Incubation, washing, and staining were carried out according to the GeneChip Mapping Assay Manual, using standard protocols on an Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Gene-Chip Scanner 3000.
| | Sample_data_processing | Data were analyzed with the GCOS software (Affymetrix), using default settings for all parameters. Pairwise comparisons were calculated using the respective normal kidney array as baseline. For normalization, 100 housekeeping genes provided by Affymetrix were used (http://www.affymetrix.com/support/technical/mask_files.affx). Relative expression values were calculated from the signal log ratios given by the software.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Andreas,Oliver,Weinzierl
| | Sample_contact_email | andi.weinzierl@web.de
| | Sample_contact_phone | 004970712987647
| | Sample_contact_fax | 00497071295653
| | Sample_contact_laboratory | Rammensee
| | Sample_contact_department | Department of Immunology
| | Sample_contact_institute | University of Tuebingen
| | Sample_contact_address | Auf der Morgenstelle 15
| | Sample_contact_city | Tuebingen
| | Sample_contact_zip/postal_code | 72076
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315864/suppl/GSM315864.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM315nnn/GSM315864/suppl/GSM315864.CHP.gz
| | Sample_series_id | GSE12606
| | Sample_data_row_count | 54675
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