Search results for the GEO ID: GSE19982  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM499330 | GPL570 |
|
C 01
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499330
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499330/suppl/GSM499330.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499331 | GPL570 |
|
C 04
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499331
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499331/suppl/GSM499331.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499332 | GPL570 |
|
C 05
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499332
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499332/suppl/GSM499332.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499333 | GPL570 |
|
C 09
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499333
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499333/suppl/GSM499333.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499334 | GPL570 |
|
C 11
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499334
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499334/suppl/GSM499334.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499335 | GPL570 |
|
C 12
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499335
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499335/suppl/GSM499335.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499336 | GPL570 |
|
C 13
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499336
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499336/suppl/GSM499336.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499337 | GPL570 |
|
C 14
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499337
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499337/suppl/GSM499337.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499338 | GPL570 |
|
C 15
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499338
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499338/suppl/GSM499338.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499339 | GPL570 |
|
C 16
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499339
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499339/suppl/GSM499339.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499340 | GPL570 |
|
C 086
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499340
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499340/suppl/GSM499340.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499341 | GPL570 |
|
C 141
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499341
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499341/suppl/GSM499341.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499342 | GPL570 |
|
C 144
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499342
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499342/suppl/GSM499342.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499343 | GPL570 |
|
C 002
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499343
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499343/suppl/GSM499343.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499344 | GPL570 |
|
C 028
|
Chromophobe RCC tumor tissue
|
disease state: Chromophobe renal cell carcinoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499344
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499344/suppl/GSM499344.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499345 | GPL570 |
|
O B01
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499345
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499345/suppl/GSM499345.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499346 | GPL570 |
|
O 04
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499346
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499346/suppl/GSM499346.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499347 | GPL570 |
|
O 05
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499347
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499347/suppl/GSM499347.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499348 | GPL570 |
|
O 07
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499348
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499348/suppl/GSM499348.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499349 | GPL570 |
|
O 09
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499349
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499349/suppl/GSM499349.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499350 | GPL570 |
|
O 11
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499350
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499350/suppl/GSM499350.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499351 | GPL570 |
|
O 13
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499351
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499351/suppl/GSM499351.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499352 | GPL570 |
|
O 14
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499352
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499352/suppl/GSM499352.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499353 | GPL570 |
|
O 15
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499353
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499353/suppl/GSM499353.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499354 | GPL570 |
|
O 19
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499354
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499354/suppl/GSM499354.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499355 | GPL570 |
|
O 20
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499355
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499355/suppl/GSM499355.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499356 | GPL570 |
|
O 110
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499356
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499356/suppl/GSM499356.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499357 | GPL570 |
|
O 16
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499357
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499357/suppl/GSM499357.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499358 | GPL570 |
|
O 99
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499358
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499358/suppl/GSM499358.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
GSM499359 | GPL570 |
|
O 043
|
Oncocytoma tissue
|
disease state: Renal oncocytoma
|
mRNA profiling
|
| Sample_geo_accession | GSM499359
| | Sample_status | Public on Jun 18 2010
| | Sample_submission_date | Jan 21 2010
| | Sample_last_update_date | Jun 18 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | 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 6 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 GeneChip HG-U133Plus 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Statistical analyses were performed in the statistical environment R 2.6.0, utilizing packages from the Bioconductor project.10 The robust multichip average (RMA) algorithm was used to perform pre-processing of the CEL files, including background adjustment, quartile normalization and summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Min-Han,,Tan
| | Sample_contact_laboratory | Cancer Genetics
| | Sample_contact_institute | Van Andel Research Institute
| | Sample_contact_address | 333 Bostwick Ave NE
| | Sample_contact_city | Grand Rapids
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 49503
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM499nnn/GSM499359/suppl/GSM499359.CEL.gz
| | Sample_series_id | GSE19982
| | Sample_data_row_count | 54675
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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