Result

Search results for the GEO ID: GSE11287

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM284935

GPL1261

CKO V3

liver, conditional Keap1 knockout, Alb-Cre::Keap1(flox/-)

1 tissue: Liver

Basal conditional Keap1 knockout gene expression

Sample_geo_accession	GSM284935
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284935/suppl/GSM284935.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

GSM284936

GPL1261

CKO V4

liver, conditional Keap1 knockout, Alb-Cre::Keap1(flox/-)

1 tissue: Liver

Basal conditional Keap1 knockout gene expression

Sample_geo_accession	GSM284936
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284936/suppl/GSM284936.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

GSM284937

GPL1261

CKO V5

liver, conditional Keap1 knockout, Alb-Cre::Keap1(flox/-)

1 tissue: Liver

Basal conditional Keap1 knockout gene expression

Sample_geo_accession	GSM284937
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284937/suppl/GSM284937.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

GSM284938

GPL1261

CKO Wild Type V1

liver, genetic control Alb-Cre:Keap1(flox/+)

1 tissue: Liver

Basal gene expression in genetic control strain

Sample_geo_accession	GSM284938
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284938/suppl/GSM284938.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

GSM284939

GPL1261

CKO Wild Type V2

liver, genetic control Alb-Cre:Keap1(flox/+)

1 tissue: Liver

Basal gene expression in genetic control strain

Sample_geo_accession	GSM284939
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284939/suppl/GSM284939.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

GSM284940

GPL1261

CKO Wild Type V3

liver, genetic control Alb-Cre:Keap1(flox/+)

1 tissue: Liver

Basal gene expression in genetic control strain

Sample_geo_accession	GSM284940
Sample_status	Public on May 01 2008
Sample_submission_date	Apr 29 2008
Sample_last_update_date	Apr 30 2008
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	received vehicle only (10% DMSO, 10% Cremophor-EL, 80% PBS)
Sample_growth_protocol_ch1	no growth protocol
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Versagene RNA tissue kit was used for extraction of total RNA according to the manufacturer's instructions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cDNA step using Invitrogen SuperScript Double-stranded cDNA Synthesis Kit cDNA cleanup by Affymetrix GeneChip Sample Cleanup Module, cRNA amplification by Ambion MEGAscript T7 Kit, Cleanup by Qiagen RNeasy Mini Kit. cDNA synthesis by Invitrogen SuperScript Double-stranded cDNA Synthesis Kit using a T7-Oligo(dT) promoter primer from Affymetrix, cRNA amplification using ENZO BioArray HighYield RNA Transcript Labeling Kit, Metal-induced hydrolysis by Affymetrix 5 X Fragmentation Buffer, External controls (spikes)- Control Oligo B2 (3 nM), Eukaryotic Hybridization control (Affymetrix) (Small Sample Labeling Protocol vII, Affymetrix).
Sample_hyb_protocol	Following fragmentation, 1 200 ul of hybridization cocktail containing 7 ug of fragmented cRNA placed on chip - Hybridized for 18 hours in GeneChip Hybridization Oven 640 - Washed and stained using 2 strepavidin stains and one antibody stain on GeneChip Fluidics Station 400 for 1.5 hours (GeneChip Expression Analysis Technical Manul- Affymetrix)
Sample_scan_protocol	Arrays were scanned with a GCS300 Scanner (Affymetrix) for images and intensities.
Sample_data_processing	Data extraction was processed by Affy GeneChip® Operating Software v1.3 (Affymetrix). Global scaling was equal to 500. Normalization factor was equal to 1. Analysis of differentially expressed transcripts was accomplished using a pairwise comparative analysis (Affy Data Mining Tool v3.1; Affymetrix). 3 sets CKO V x 3 sets CKOWT V comparison (1.5 fold cutoff (FC), Signal strength values were log-transformed to generate a normal distribution followed by independent two sample t-test < 0.05, 6 out of 9 comparisons). Also, ABS \|FC - FC SEM\| >= 1.5
Sample_platform_id	GPL1261
Sample_contact_name	William,O,Osburn
Sample_contact_department	Environmental Health
Sample_contact_institute	Johns Hopkins Bloomberg School of Public Health
Sample_contact_address	615 N. Wolfe St
Sample_contact_city	Baltimore
Sample_contact_state	MD
Sample_contact_zip/postal_code	21205
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM284nnn/GSM284940/suppl/GSM284940.CEL.gz
Sample_series_id	GSE11287
Sample_data_row_count	45101

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