Search results for the GEO ID: GSE32701  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM812458 | GPL570 |
|
Biopsy sample BPY015
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 15
|
BPY015
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812458
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812458/suppl/GSM812458.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812458/suppl/GSM812458.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812459 | GPL570 |
|
Biopsy sample BPY030
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 30
|
BPY030
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812459
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812459/suppl/GSM812459.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812459/suppl/GSM812459.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812460 | GPL570 |
|
Biopsy sample BPY041
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 41
|
BPY041
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812460
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812460/suppl/GSM812460.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812460/suppl/GSM812460.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812461 | GPL570 |
|
Biopsy sample BPY049
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 49
|
BPY049
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812461
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812461/suppl/GSM812461.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812461/suppl/GSM812461.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812462 | GPL570 |
|
Biopsy sample BPY063
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 63
|
BPY063
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812462
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812462/suppl/GSM812462.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812462/suppl/GSM812462.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812463 | GPL570 |
|
Biopsy sample BPY067
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 67
|
BPY067
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812463
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812463/suppl/GSM812463.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812463/suppl/GSM812463.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812464 | GPL570 |
|
Biopsy sample BPY078
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 78
|
BPY078
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812464
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812464/suppl/GSM812464.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812464/suppl/GSM812464.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812465 | GPL570 |
|
Biopsy sample BPY094
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 94
|
BPY094
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812465
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812465/suppl/GSM812465.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812465/suppl/GSM812465.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812466 | GPL570 |
|
Biopsy sample BPY113
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 113
|
BPY113
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812466
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812466/suppl/GSM812466.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812466/suppl/GSM812466.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812467 | GPL570 |
|
Biopsy sample BPY120
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 120
|
BPY120
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812467
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812467/suppl/GSM812467.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812467/suppl/GSM812467.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812468 | GPL570 |
|
Biopsy sample BPY124
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 124
|
BPY124
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812468
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812468/suppl/GSM812468.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812468/suppl/GSM812468.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812469 | GPL570 |
|
Biopsy sample BPY127
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 127
|
BPY127
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812469
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812469/suppl/GSM812469.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812469/suppl/GSM812469.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812470 | GPL570 |
|
Biopsy sample BPY128
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 128
|
BPY128
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812470
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812470/suppl/GSM812470.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812470/suppl/GSM812470.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812471 | GPL570 |
|
Biopsy sample BPY129
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 129
|
BPY129
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812471
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812471/suppl/GSM812471.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812471/suppl/GSM812471.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812472 | GPL570 |
|
Biopsy sample BPY131
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 131
|
BPY131
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812472
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812472/suppl/GSM812472.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812472/suppl/GSM812472.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812473 | GPL570 |
|
Biopsy sample BPY136
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 136
|
BPY136
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812473
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812473/suppl/GSM812473.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812473/suppl/GSM812473.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812474 | GPL570 |
|
Biopsy sample BPY143
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 143
|
BPY143
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812474
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812474/suppl/GSM812474.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812474/suppl/GSM812474.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812475 | GPL570 |
|
Biopsy sample BPY145
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 145
|
BPY145
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812475
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812475/suppl/GSM812475.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812475/suppl/GSM812475.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812476 | GPL570 |
|
Biopsy sample BPY148
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 148
|
BPY148
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812476
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812476/suppl/GSM812476.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812476/suppl/GSM812476.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812477 | GPL570 |
|
Biopsy sample BPY162
|
Esophagus, cancerous portion, biopsy
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: biopsy
patient identifier: 162
|
BPY162
Gene expression data from biopsy sample of esophageal cancer.
|
| Sample_geo_accession | GSM812477
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812477/suppl/GSM812477.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812477/suppl/GSM812477.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812478 | GPL570 |
|
Surgical sample OPE015
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 15
|
OPE015
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812478
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812478/suppl/GSM812478.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812478/suppl/GSM812478.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812479 | GPL570 |
|
Surgical sample OPE030
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 30
|
OPE030
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812479
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812479/suppl/GSM812479.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812479/suppl/GSM812479.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812480 | GPL570 |
|
Surgical sample OPE041
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 41
|
OPE041
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812480
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812480/suppl/GSM812480.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812480/suppl/GSM812480.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812481 | GPL570 |
|
Surgical sample OPE049
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 49
|
OPE049
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812481
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812481/suppl/GSM812481.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812481/suppl/GSM812481.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812482 | GPL570 |
|
Surgical sample OPE063
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 63
|
OPE063
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812482
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812482/suppl/GSM812482.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812482/suppl/GSM812482.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812483 | GPL570 |
|
Surgical sample OPE067
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 67
|
OPE067
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812483
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812483/suppl/GSM812483.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812483/suppl/GSM812483.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812484 | GPL570 |
|
Surgical sample OPE078
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 78
|
OPE078
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812484
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812484/suppl/GSM812484.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812484/suppl/GSM812484.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812485 | GPL570 |
|
Surgical sample OPE094
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 94
|
OPE094
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812485
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812485/suppl/GSM812485.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812485/suppl/GSM812485.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812486 | GPL570 |
|
Surgical sample OPE113
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 113
|
OPE113
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812486
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812486/suppl/GSM812486.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812486/suppl/GSM812486.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812487 | GPL570 |
|
Surgical sample OPE120
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 120
|
OPE120
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812487
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812487/suppl/GSM812487.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812487/suppl/GSM812487.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812488 | GPL570 |
|
Surgical sample OPE124
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 124
|
OPE124
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812488
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812488/suppl/GSM812488.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812488/suppl/GSM812488.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812489 | GPL570 |
|
Surgical sample OPE127
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 127
|
OPE127
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812489
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812489/suppl/GSM812489.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812489/suppl/GSM812489.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812490 | GPL570 |
|
Surgical sample OPE128
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 128
|
OPE128
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812490
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812490/suppl/GSM812490.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812490/suppl/GSM812490.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812491 | GPL570 |
|
Surgical sample OPE129
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 129
|
OPE129
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812491
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812491/suppl/GSM812491.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812491/suppl/GSM812491.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812492 | GPL570 |
|
Surgical sample OPE131
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 131
|
OPE131
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812492
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812492/suppl/GSM812492.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812492/suppl/GSM812492.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812493 | GPL570 |
|
Surgical sample OPE136
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 136
|
OPE136
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812493
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812493/suppl/GSM812493.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812493/suppl/GSM812493.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812494 | GPL570 |
|
Surgical sample OPE143
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 143
|
OPE143
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812494
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812494/suppl/GSM812494.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812494/suppl/GSM812494.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812495 | GPL570 |
|
Surgical sample OPE145
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 145
|
OPE145
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812495
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812495/suppl/GSM812495.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812495/suppl/GSM812495.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812496 | GPL570 |
|
Surgical sample OPE148
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 148
|
OPE148
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812496
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812496/suppl/GSM812496.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812496/suppl/GSM812496.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | Sample_data_row_count | 54675
| | |
|
GSM812497 | GPL570 |
|
Surgical sample OPE162
|
Esophagus, cancerous portion, surgical
|
disease state: esophageal cancer
tissue: cancerous portion of esophagus
sample type: surgical
patient identifier: 162
|
OPE162
Gene expression data from surgical sample of esophageal cancer.
|
| Sample_geo_accession | GSM812497
| | Sample_status | Public on Oct 07 2011
| | Sample_submission_date | Oct 07 2011
| | Sample_last_update_date | Oct 07 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | All surgical samples were obtained from esophageal cancer patients without neoadjuvant therapy, and all biopsy samples were obtained before treatment. For the surgical samples, trained pathologists carefully excised bulk tissue samples from the main tumor, leaving a clear margin from the surrounding normal tissue. Surgical and biopsy samples were immediately frozen at -80ﾟC until use. Frozen samples were placed in the ISOGEN solution (Nippon Gene, Toyama, Japan) and homogenized before total RNA extraction.
| | Sample_growth_protocol_ch1 | All esophageal cancer tissues and non-cancerous tissues were provided by the Central Hospital or East Hospital at the National Cancer Center after obtaining written informed consent from each patient and approval by the Center’s Ethics Committee.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | ISOGEN extraction of total RNA was performed according to the manufacturer's instructions.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared from 100 ng total RNA by the two-cycle cDNA synthesis system. The procedure was according to the standard Affymetrix protocol (Section 2: Eukaryotic sample and array processing).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45ﾟC on the GeneChip Human Genome Array U95Av2. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using default settings by Expression Console ver 1.1.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Kazuhiko,,Aoyagi
| | Sample_contact_institute | National Cancer Center Reseach Institute
| | Sample_contact_address | Tukiji5-1-1
| | Sample_contact_city | Chuo-ku
| | Sample_contact_state | Tokyo
| | Sample_contact_zip/postal_code | 104-0045
| | Sample_contact_country | Japan
| | Sample_contact_web_link | http://www.ncc.go.jp/en/nccri/index.html
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812497/suppl/GSM812497.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM812nnn/GSM812497/suppl/GSM812497.CHP.gz
| | Sample_series_id | GSE22954
| | Sample_series_id | GSE32701
| | 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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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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