Result

Search results for the GEO ID: GSE16048

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM401525

GPL1261

Control ppar_beta_floxed_rep1

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: control cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401525
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401525/suppl/GSM401525.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

GSM401526

GPL1261

Control ppar_beta_floxed_rep2

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: control cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401526
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401526/suppl/GSM401526.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

GSM401527

GPL1261

Control ppar_beta_floxed_rep3

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: control cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401527
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401527/suppl/GSM401527.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

GSM401528

GPL1261

Knockout cre_ppar_beta_floxed_rep1

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: PPAR-beta deletion cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401528
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401528/suppl/GSM401528.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

GSM401529

GPL1261

Knockout cre_ppar_beta_floxed_rep2

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: PPAR-beta deletion cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401529
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401529/suppl/GSM401529.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

GSM401530

GPL1261

Knockout cre_ppar_beta_floxed_rep3

pancreatic beta-cells

age: 8 weeks genetic background: SV 129/C57BL/6 genotype: PPAR-beta deletion cell type: pancreatic beta-cell

8 weeks old mice, mixed genetic background (SV 129/C57BL/6)

Sample_geo_accession	GSM401530
Sample_status	Public on Aug 30 2012
Sample_submission_date	May 11 2009
Sample_last_update_date	Aug 30 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	Islet isolation was accomplished from 8 weeks-old mice by 100 mg of collagenase digestion (211U/mg) followed by purification through a Histopaque gradient. Islet perifusion was carried out by placing 30 islets into a perifusion chamber (Milipore) as describe previously (Gao N 2007).
Sample_growth_protocol_ch1	Pancreas-specific knock-out animals were generated by breeding mice harbouring a floxed Ppar-beta (PPARbetafl/fl) to mice expressing the Cre transgene under the control of the Pdx1 promoter (Pdx1Cre).
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA from islets or pancreas was extracted by using guanidine thiocyanate (Sigma) according to the manufacturer’s recommendation. RNA quality and quantity was assessed by NanoDrop®ND-1000 spectrophotometer and Aligent 2100 bio-analyzer.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	The synthesis of cRNA was performed using the MessageAmp™ II-Biotin Enhanced Single Round aRNA Amplification kits according to the manufacturers' protocols (Ambion, Austin, TX). Labeling, hybridization and scanning of the samples were performed as described by Affymetrix (www.affymetrix.com).
Sample_hyb_protocol	Affymetrix Mouse Genome 430 2.0 arrays were hybridized with 11 microgramme of labeled, amplified cRNA , washed, stained and scanned according to the protocol described in Affymetrix GeneChip® Expression Analysis Manual (Fluidics protocol EukGeWS2v5_450)
Sample_scan_protocol	Scanning was done on an Affymetrix GeneChip Scanner 7G
Sample_data_processing	Normalized expression signals were calculated from Affymetrix CEL files using RMA (Irizarry et al., 2003).
Sample_platform_id	GPL1261
Sample_contact_name	Sylvain,,Pradervand
Sample_contact_email	Sylvain.Pradervand@unil.ch
Sample_contact_phone	+41 21 692 39 08
Sample_contact_laboratory	DNA Array Facility
Sample_contact_department	CIG
Sample_contact_institute	UNI Lausanne
Sample_contact_address	Genopode
Sample_contact_city	Lausanne
Sample_contact_zip/postal_code	1015
Sample_contact_country	Switzerland
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM401nnn/GSM401530/suppl/GSM401530.CEL.gz
Sample_series_id	GSE16048
Sample_data_row_count	45101

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