Result

Search results for the GEO ID: GSE27019

(Click on the check boxes provided under "Select for analysis", to initiate grouping)

(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down)

GSM ID

GPL ID

Select for analysis

Title

Source name

Description

Characteristics

GSM665538

GPL1261

HFD fed wild type mouse 1

wt1

genotype: wild type tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed wild type mouse.

Sample_geo_accession	GSM665538
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665538/suppl/GSM665538_1320_015_wt1_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

GSM665539

GPL1261

HFD fed wild type mouse 3

wt3

genotype: wild type tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed wild type mouse.

Sample_geo_accession	GSM665539
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665539/suppl/GSM665539_1321_015_wt3_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

GSM665540

GPL1261

HFD fed wild type mouse 4

wt4

genotype: wild type tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed wild type mouse.

Sample_geo_accession	GSM665540
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665540/suppl/GSM665540_1323_015_wt4_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

GSM665541

GPL1261

HFD fed TIS7 SKMc15 double knock out mouse 1

dKO1

genotype: TIS7 SKMc15 double knock out tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed TIS7 (Ifrd1) SKMc15 (Ifrd2) double knock out mouse.

Sample_geo_accession	GSM665541
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665541/suppl/GSM665541_1322_015_dKO1_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

GSM665542

GPL1261

HFD fed TIS7 SKMc15 double knock out mouse 2

dKO2

genotype: TIS7 SKMc15 double knock out tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed TIS7 (Ifrd1) SKMc15 (Ifrd2) double knock out mouse.

Sample_geo_accession	GSM665542
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665542/suppl/GSM665542_1324_015_dKO2_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

GSM665543

GPL1261

HFD fed TIS7 SKMc15 double knock out mouse 3

dKO3

genotype: TIS7 SKMc15 double knock out tissue: jejunum diet: high fat genetic background: C57BL/6

Expression profile of high fat diet fed TIS7 (Ifrd1) SKMc15 (Ifrd2) double knock out mouse.

Sample_geo_accession	GSM665543
Sample_status	Public on Aug 01 2012
Sample_submission_date	Feb 02 2011
Sample_last_update_date	Aug 01 2012
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	high saturated fat (HFD) diet (Ssniff); 42% kcal from milk fat, 0.2% kcal from cholesterol).
Sample_growth_protocol_ch1	Age-matched (7-10 week old) male wild type and TIS7 SKMc15 double knock out mice were caged individually and maintained from 3 weeks up to 8 weeks on a synthetic high saturated fat (HFD) diet (Ssniff)
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Tissues from animals fed for 3 weeks with high fat diet were snap frozen and stored at –80°C. Total RNA was isolated using the TRIzol reagent (Invitrogen) and purified using Rneasy columns (Quiagene).
Sample_label_ch1	biotin
Sample_label_protocol_ch1	500 ng total RNA was processed to generate a biotinylated hybridization target using “One Cycle cDNA Synthesis” and “One Cycle Target Labelling” kits from Affymetrix (Affymetrix). All procedures were performed according to the manufacturer’s protocols.
Sample_hyb_protocol	Following RNA purification, 20 μg of cRNA were fragmented at 95° using the Affymetrix fragmentation buffer, mixed with hybridization buffer containing hybridization controls and hybridized to the GeneChips (Mouse Genome 430 2.0).
Sample_scan_protocol	Fluorescence signals were recorded by an Affymetrix scanner 3000 and image analysis performed with the GCOS software.
Sample_data_processing	Data preprocessing was performed in R using Bioconductor's (version 2.6) GCRMA package (version 2.18.0).
Sample_platform_id	GPL1261
Sample_contact_name	Johannes,,Rainer
Sample_contact_email	johannes.rainer@i-med.ac.at
Sample_contact_laboratory	Applied Bioinformatics Group
Sample_contact_department	Biocenter, Division Molecular Pathophysiology
Sample_contact_institute	Medical University Innsbruck
Sample_contact_address	Innrain 80-82 II
Sample_contact_city	Innsbruck
Sample_contact_zip/postal_code	6020
Sample_contact_country	Austria
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM665nnn/GSM665543/suppl/GSM665543_1325_015_dKO3_m01_MB_240210.CEL.gz
Sample_series_id	GSE27019
Sample_data_row_count	45101

Make groups for comparisons

(2 groups will be compared at a time)

Select GSMs and click on "Add groups"

Enter the group name here:

Select expression type

Transcripts profile based on;

A. Differential status (Up/Down regulation)

B. Absolute calls (Transcribed/Not-detected)

Filter results by number of probes