Result

Search results for the GEO ID: GSE25251

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM621274

GPL570

2106 tumor tissue

human lung squamous cell carcinoma

sample type: primary lung cancer tissue: 2106 lung squamous cell carcinoma tumor tissue

Gene expression data from human lung squamous cell carcinoma 2106

Sample_geo_accession	GSM621274
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621274/suppl/GSM621274_2106A2_300707_TK.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

GSM621275

GPL570

2106 tumor cell line

human lung squamous cell carcinoma

sample type: primary cell line cell line: 2106 tumor cell line

Gene expression data from human primary cell line of SCC 2106

Sample_geo_accession	GSM621275
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621275/suppl/GSM621275_2106T_300708_TS.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

GSM621276

GPL570

2106 lymph node tissue

human lung squamous cell carcinoma

sample type: pulmonary lymph node tissue: 2106 lymph node tissue

Gene expression data from human pulmonary lymph node 2106

Sample_geo_accession	GSM621276
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621276/suppl/GSM621276_2106LKso_211209_TS.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

GSM621277

GPL570

2106 lymph node tissue cell line

human lung squamous cell carcinoma

sample type: primary cell line cell line: 2106 lymph node tissue cell line

Gene expression data from human primary cell line of pulmonary lymph node 2106

Sample_geo_accession	GSM621277
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621277/suppl/GSM621277_2106LK_260808_TS.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

GSM621278

GPL570

2427 tumor tissue

human lung squamous cell carcinoma

sample type: primary lung cancer tissue: 2427 lung squamous cell carcinoma tumor tissue

Gene expression data from human lung squamous cell carcinoma 2427

Sample_geo_accession	GSM621278
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621278/suppl/GSM621278_2427C1_160409_TK.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

GSM621279

GPL570

2427 tumor cell line

human lung squamous cell carcinoma

sample type: primary cell line cell line: 2427 tumor cell line

Gene expression data from human primary cell line of SCC 2427

Sample_geo_accession	GSM621279
Sample_status	Public on Aug 31 2011
Sample_submission_date	Nov 09 2010
Sample_last_update_date	Aug 31 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	tumor tissue and lymph node metastasis were obtained from volunteer donors undergoing lung surgery for newly diagnosed NSCLC. Tissues were divided, snap frozen and stored at -80°C, and for cell isolation and culturing immediately placed on ice and prepared as described by Sugaya et al. with minor modifications
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	total RNA was extracted using the RNeasy Kit (Qiagen, Hilden, Germany) according to the manufacturers’ instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Affymetrix ROC technical manual 701021 Rev.5).
Sample_hyb_protocol	Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Affymetrix GeneChip® U133 Plus 2.0 in the Affymetrix GeneChip® Hybridization Oven 640. GeneChips were washed and stained in the Affymetrix GeneChip® Fluidics Station 450.
Sample_scan_protocol	Hybridized microarrays were scanned with the Affymetrix GeneChip® Scanner 3000.
Sample_data_processing	Bioconductor [Gentleman et al. Genome Biology 2004] and R language [Ihaka and Gentleman. Journal of Computational and Graphical Statistics 1996] were used for pre-processing of the 6 hybridizations. The microarray data was normalized by the gcRMA method [Wu et al. Journal of the American Statistical Association 2004].
Sample_platform_id	GPL570
Sample_contact_name	Ruprecht,,Kuner
Sample_contact_email	r.kuner@dkfz.de
Sample_contact_laboratory	Unit Cancer Genome Research
Sample_contact_department	Molecular Genetics
Sample_contact_institute	German Cancer Research Center and National Center of Tumor Diseases
Sample_contact_address	Im Neuenheimer Feld 460
Sample_contact_city	Heidelberg
Sample_contact_zip/postal_code	69120
Sample_contact_country	Germany
Sample_contact_web_link	http://www.dkfz.de/en/genetics/TranslationalOncogenomics/cancer-genome-research.html/groups.asp?siteID=93
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM621nnn/GSM621279/suppl/GSM621279_2427T_300708_TS.CEL.gz
Sample_series_id	GSE25251
Sample_data_row_count	54675

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