Search results for the GEO ID: GSE17187  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM429885 | GPL570 |
|
stomach_N1_1
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: female
age: 77
tissue: gastric cancer
tumour stage: T2b
nodal status: N1
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429885
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429885/suppl/GSM429885.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429885/suppl/GSM429885.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
GSM429886 | GPL570 |
|
stomach_N0_1
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: male
age: 70
tissue: gastric cancer
tumor stage: T2b
nodal status: N0
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429886
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429886/suppl/GSM429886.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429886/suppl/GSM429886.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
GSM429887 | GPL570 |
|
stomach_N1_2
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: male
age: 80
tissue: gastric cancer
tumor stage: T2b
nodal status: N1
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429887
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429887/suppl/GSM429887.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429887/suppl/GSM429887.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
GSM429888 | GPL570 |
|
stomach_N0_2
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: female
age: 84
tissue: gastric cancer
tumor stage: 2a
nodal status: N0
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429888
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429888/suppl/GSM429888.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429888/suppl/GSM429888.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
GSM429889 | GPL570 |
|
stomach_N1_3
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: male
age: 25
tissue: gastric cancer
tumor stage: T3
nodal status: N1
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429889
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429889/suppl/GSM429889.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429889/suppl/GSM429889.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
GSM429890 | GPL570 |
|
stomach_N0_3
|
tumourous tissue, surgically resected from patient with intestinal type gastric cancer.
|
gender: male
age: 41
tissue: gastric cancer
tumor stage: T2b
nodal status: N0
|
Gene expression data from tumourous tissue of the corpus.
|
| Sample_geo_accession | GSM429890
| | Sample_status | Public on Jun 10 2010
| | Sample_submission_date | Jul 20 2009
| | Sample_last_update_date | Jun 10 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Tumour tissue was fragmented into smaller pieces under liquid nitrogen using a homogenizer. Around 30 mg of the sample was subjected to RNA isolation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated with phenol-chloroform using the mirVana™ miRNA Isolation Kit (Ambion, Austin, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labelled cRNA was generated by in vitro transcription from the DNA using the GeneChip RNA transcript labelling kit (Affymetrix, Santa Clara, CA).
| | Sample_hyb_protocol | The biotin-labelled cRNA was fragmented and subsequently 15 µg of each sample was hybridized for 16 hours at 45°C to an Affymetrix (Human Genome) GeneChip® Human Genome U133 Plus 2.0 Array. After hybridization, the chips underwent an automated washing and staining protocol with streptavidin-phycoerythrin as recommended by Affymetrix.
| | Sample_scan_protocol | GeneChip arrays were scanned using the GeneChip Scanner 3000.
| | Sample_data_processing | Raw data were analyzed with the Affymetrix GeneChip Operating Software (GCOS 1.4). To enable the comparison between chips the data were scaled to a global intensity of 500. The Data Mining Tool 3.0 (Affymetrix) and GeneSpring software package 7.2 (Silicon Genetics, Redwood City, CA) were used to average results from different samples and perform statistical analysis. The normalization consists of the three steps: first, data transformation (set measurements less than 300.0 to 300.0); second, per chip (normalize each chip to the 50th percentile of the measurements taken from that chip); and third, per gene (normalize each gene to the median of the measurements for that gene).
| | Sample_platform_id | GPL570
| | Sample_contact_name | Eva,,Simon
| | Sample_contact_email | Eva.Simon@uk-sh.de
| | Sample_contact_phone | +49-0431-5973400
| | Sample_contact_fax | +49-0431-5973462
| | Sample_contact_department | Institute of Pathology
| | Sample_contact_institute | Christian-Albrechts-University
| | Sample_contact_address | Arnold-Heller-Straße 3, Haus 14
| | Sample_contact_city | Kiel
| | Sample_contact_state | Schleswig-Holstein
| | Sample_contact_zip/postal_code | 24105
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429890/suppl/GSM429890.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM429nnn/GSM429890/suppl/GSM429890.EXP.gz
| | Sample_series_id | GSE17187
| | Sample_data_row_count | 54675
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
|
| Select GSMs and click on "Add groups" |
Enter the group name here: |
|
|
|
