Result

Search results for the GEO ID: GSE10696

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM270524

GPL570

A431_wt, biological rep1

A431_wt cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female

Gene expression data from wild-type A431

Sample_geo_accession	GSM270524
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270524/suppl/GSM270524.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270524/suppl/GSM270524.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

GSM270525

GPL570

A431_wt, biological rep2

A431_wt cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female

Gene expression data from wild-type A431

Sample_geo_accession	GSM270525
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270525/suppl/GSM270525.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270525/suppl/GSM270525.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

GSM270526

GPL570

A431_wt, biological rep3

A431_wt cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female

Gene expression data from wild-type A431

Sample_geo_accession	GSM270526
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270526/suppl/GSM270526.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270526/suppl/GSM270526.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

GSM270527

GPL570

A431_GR, biological rep1

A431_GR cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female; these cells were selected and maintained in gefitinib (3uM)

Gene expression data from gefitinib-resistant A431

Sample_geo_accession	GSM270527
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270527/suppl/GSM270527.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270527/suppl/GSM270527.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

GSM270528

GPL570

A431_GR, biological rep2

A431_GR cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female; these cells were selected and maintained in gefitinib (3uM)

Gene expression data from gefitinib-resistant A431

Sample_geo_accession	GSM270528
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270528/suppl/GSM270528.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270528/suppl/GSM270528.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

GSM270529

GPL570

A431_GR, biological rep3

A431_GR cells

Organ: skin; Tissue: epidermis; Disease: epidermoid carcinoma; Age: 85 years; Gender: female; these cells were selected and maintained in gefitinib (3uM)

Gene expression data from gefitinib-resistant A431

Sample_geo_accession	GSM270529
Sample_status	Public on Mar 05 2008
Sample_submission_date	Mar 03 2008
Sample_last_update_date	Mar 04 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Homo sapiens
Sample_taxid_ch1	9606
Sample_treatment_protocol_ch1	Cells grown in complete medium were rinsed with PBS and placed on ice in the TRIzol reagent.
Sample_growth_protocol_ch1	Cells were grown in Improved MEM (IMEM) Zn2+ Option (Invitrogen, Carlsbad, CA) supplemented with 10% FBS in a humidified 5% CO2 incubator at 37°C.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was isolated from parental and GR A431 cells using TRIzol reagent (Invitrogen, Carlsbad, CA), followed by RNeasy Mini Kit column purification (Qiagen, Valencia, CA) including an in column DNAse clean-up using RNAse-free DNAse Set (Qiagen). Agilent’s Bioanalyzer microfluidic assay (Agilent Technologies, Palo Alto CA) was used to assay RNA integrity. Spectrophotometric and fluorometric methods were combined to quantitate protein and nucleic acids present in the sample, and to ensure quality control of each sample.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	Following quality control, the RNA was prepared for microarray analysis using the standard Affymetrix protocol (Affymetrix Inc, Santa Clara, CA). Briefly, a total of 5 µg of total RNA was reverse transcribed to double-stranded (ds) cDNA using an oligo-dT primer coupled to a T7 promoter. In vitro transcription from the ds cDNA was then carried out using T7 polymerase and incorporating biotin-modified CTP and UTP ribonucleotides.
Sample_hyb_protocol	The biotinylated cRNA (15 µg) was fragmented and hybridized to an Affymetrix GeneChip Mouse Genome 430 2.0 Array containing 45,000 sets of 11 to 25-mer oligomers, representing 39,000 mouse transcripts (34,000 are annotated as well-defined genes). Hybridized cRNA was detected using streptavidin coupled to phycoerythrin.
Sample_scan_protocol	GeneChips were scanned using GeneChip Scanner 3000 7G Plus 2 and GeneChip Operating System (GCOS, Affymetrix, Santa Clara, CA). Default values were used to grid images (.DAT) and generate .CEL and .CHP files.
Sample_data_processing	CEL files (raw Affymetrix data) were imported in GeneSpring 7.0 (Agilent Technologies) and transformed by RMA (Robust Multichip Analysis). The "Value" column shows this normalized signal intensity value.
Sample_platform_id	GPL570
Sample_contact_name	Shizhen Emily,,Wang
Sample_contact_email	emily.wang@vanderbilt.edu
Sample_contact_phone	615-936-3761
Sample_contact_fax	615-936-1790
Sample_contact_laboratory	Arteaga
Sample_contact_department	Cancer Biology
Sample_contact_institute	Vanderbilt University
Sample_contact_address	2220 Pierce AVE, PRB-771
Sample_contact_city	Nashville
Sample_contact_state	TN
Sample_contact_zip/postal_code	37232
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270529/suppl/GSM270529.CEL.gz
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM270nnn/GSM270529/suppl/GSM270529.CHP.gz
Sample_series_id	GSE10696
Sample_data_row_count	54675

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