Result

Search results for the GEO ID: GSE20968

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Title

Source name

Description

Characteristics

GSM524183

GPL1261

HNF4fxVilCRE_CTRL1

HNF4fxVilCRE_CTRL

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT17.CEL

Sample_geo_accession	GSM524183
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524183/suppl/GSM524183_YF060516MOT17.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

GSM524184

GPL1261

HNF4fxVilCRE_CTRL2

HNF4fxVilCRE_CTRL

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT18.CEL

Sample_geo_accession	GSM524184
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524184/suppl/GSM524184_YF060516MOT18.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

GSM524185

GPL1261

HNF4fxVilCRE_CTRL3

HNF4fxVilCRE_CTRL

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT19.CEL

Sample_geo_accession	GSM524185
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524185/suppl/GSM524185_YF060516MOT19.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

GSM524186

GPL1261

HNF4fxVilCRE_MUT1

HNF4fxVilCRE_MUT

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT14.CEL

Sample_geo_accession	GSM524186
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524186/suppl/GSM524186_YF060516MOT14.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

GSM524187

GPL1261

HNF4fxVilCRE_MUT2

HNF4fxVilCRE_MUT

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT15.CEL

Sample_geo_accession	GSM524187
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524187/suppl/GSM524187_YF060516MOT15.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

GSM524188

GPL1261

HNF4fxVilCRE_MUT3

HNF4fxVilCRE_MUT

strain: B6.129X1(FVB)-Hnf4atm1.1Gonz/J age: adult tissue: jejunum

YF060516MOT16.CEL

Sample_geo_accession	GSM524188
Sample_status	Public on Jan 01 2011
Sample_submission_date	Mar 19 2010
Sample_last_update_date	Jan 01 2011
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_biomaterial_provider_ch1	Jackson Laboratory, Cat#004665
Sample_treatment_protocol_ch1	Injection of Ketamine/xylazine (300mg/kg; 40mg/kg) before sacrifice
Sample_growth_protocol_ch1	Mice were maintained in pathogen free environnement.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA with Ambion Totally RNA
Sample_label_ch1	Biotin
Sample_label_protocol_ch1	Total RNA has been isolated by Ambion ToTALLY RNA kit from total jejunum biopsies
Sample_hyb_protocol	The hybridization mixture was prepared by mixing 15 mg biotinylated probe with control oligonucleotide B2 (final concentration 50 pM; Affymetrix), herring sperm DNA (final concentration 0.1 mg/ml; Research Genetics), acetylated bovine serum albumin (final concentration 0.5 mg/ml; Gibco BRL Life Technologies) in a final volume of 300 ml of 13 MES hybridization buffer (100 mM MES, 1 M NaCl, 20 mM EDTA, 0.01% Tween-20; all reagents from Sigma). The hybridization mixture was denatured for 10 minutes at 99 C, incubated for 5 minutes at 45 C, and spun for 5 minutes in a benchtop microcentrifuge. The microarray was warmed to room temperature and prehybridized in hybridization buffer for 10–20 minutes at 45 C. The prehybridization solution was removed and 150 ml of the hybridization mix was added to the array. The array and probe fragments were incubated at 45 C overnight (16–20 hours). After hybridization, nonspecifically bound probe was removed by washing with the GeneChip Fluidics station 400 (Affymetrix). In total, 10 low-stringency washes (63 SSPE, 0.01% Tween-20, 0.005% Antifoam) and 4 high-stringency washes (100 mM MES, 0.1 M NaCl, 0.01% Tween-20, 50 C) were performed (all reagents from Sigma).
Sample_scan_protocol	Specifically bound probe was detected by incubating the arrays with SAPE (Molecular Probes) and scanning the chips with a Hewlett-Packard GeneArray scanner (Affymetrix). A second scan was performed after signal enhancement with biotinylated anti-streptavidin antibody Vector Laboratories). The scanned images were analyzed using the GeneChip Analysis Suite 3.3 (Affymetrix) to identify genes differentially expressed among the RNA samples.
Sample_data_processing	FlexArray 1.3 was used for data analysis (www.genomequebec.mcgill.ca)
Sample_platform_id	GPL1261
Sample_contact_name	Francois,,Boudreau
Sample_contact_email	francois.boudreau@usherbrooke.ca
Sample_contact_phone	819-820-6876
Sample_contact_fax	819-564-5320
Sample_contact_laboratory	Boudreau
Sample_contact_department	Anatomy and Cell Biology
Sample_contact_institute	University of Sherbrooke
Sample_contact_address	3001 12e ave Nord
Sample_contact_city	Sherbrooke
Sample_contact_state	Quebec
Sample_contact_zip/postal_code	J1H 5N4
Sample_contact_country	Canada
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM524nnn/GSM524188/suppl/GSM524188_YF060516MOT16.CEL.gz
Sample_series_id	GSE20968
Sample_data_row_count	45101

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