Result

Search results for the GEO ID: GSE14004

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GSM ID

GPL ID

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Title

Source name

Description

Characteristics

GSM351690

GPL1261

preadipocyte rep1

preadipocytes

3T3-L1 cells

Gene expression data from preadipocytes.

Sample_geo_accession	GSM351690
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351690/suppl/GSM351690.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351691

GPL1261

preadipocyte rep2

preadipocytes

3T3-L1 cells

Gene expression data from preadipocytes.

Sample_geo_accession	GSM351691
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351691/suppl/GSM351691.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351692

GPL1261

preadipocyte rep3

preadipocytes

3T3-L1 cells

Gene expression data from preadipocytes.

Sample_geo_accession	GSM351692
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351692/suppl/GSM351692.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351693

GPL1261

control siRNA rep1

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with control siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351693
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351693/suppl/GSM351693.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351694

GPL1261

control siRNA rep2

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with control siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351694
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351694/suppl/GSM351694.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351695

GPL1261

control siRNA rep3

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with control siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351695
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351695/suppl/GSM351695.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351696

GPL1261

PPAR gamma siRNA rep1

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with PPAR gamma siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351696
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351696/suppl/GSM351696.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351697

GPL1261

PPAR gamma siRNA rep2

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with PPAR gamma siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351697
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351697/suppl/GSM351697.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

GSM351698

GPL1261

PPAR gamma siRNA rep3

day 14 adipocytes

3T3-L1 cells

Gene expression data from 3T3-L1 adipocytes treated with PPAR gamma siRNA 14 days after initiation of differentiation.

Sample_geo_accession	GSM351698
Sample_status	Public on Jan 14 2009
Sample_submission_date	Dec 16 2008
Sample_last_update_date	Jan 14 2009
Sample_type	RNA
Sample_channel_count	1
Sample_organism_ch1	Mus musculus
Sample_taxid_ch1	10090
Sample_treatment_protocol_ch1	14 days after induction of differentiation, 3T3-L1 adipocytes were transfected by electroporation (Nucleofector II, AMAXA, Germany). Cells were detached from culture dishes with 0.25% trypsin and 0.5 mg collagenase/ml in PBS, washed twice, resuspended in electroporation buffer (solution V, AMAXA), mixed with 2 or 3nmol of control (non-targeting oligonucleotide, Dharmacon) or PPAR gamma siRNA oligonucleotides and seeded into 12-well plates after electroporation.
Sample_growth_protocol_ch1	Murine 3T3-L1 cells were maintained in Dulbecco's modified Eagle's medium supplemented with 10% fetal bovine serum (U.S. Bio-Technologies Inc, Parkerford, PA, USA), 100 U/ml penicillin, and 100 µg/ml streptomycin. 3T3 cells were grown to confluence and induced to differentiate 2 days after confluence with media containing 1 µM dexamethasone, 10 µg/ml bovine insulin, and 0.5 mM 3-isobutyl-1-methylxanthine (all Sigma, MO, USA) for 2 days and for an additional 2 days in insulin only. Adipocytes were considered mature after 8 days with at least 95% conversion into the adipocyte morphology.
Sample_molecule_ch1	total RNA
Sample_extract_protocol_ch1	Total RNA was extracted and purified with the RNeasy Mini Kit (Qiagen GmbH, Hilden, Germany) according to the manufacturers directions.
Sample_label_ch1	biotin
Sample_label_protocol_ch1	cRNA labeling was done according to standard Affymetrix protocols.
Sample_hyb_protocol	Affymetrix arrays were hybridized according to standard Affymetrix protocols.
Sample_scan_protocol	Hybridized arrays were scanned using an Affymetrix GeneChip Scanner 3000.
Sample_data_processing	Scanned image files were analyzed for probe intensities and converted to tabular formats using the Microarray Suite Expression Analysis software from Affymetrix. Probe set intensitiy summarization and normalization were calculated using RMA implemented using the Bioconductor project in the software package R. Present/Absent calls were calculated using the mas5calls function within the bioconductor affy package version 1.16.0.
Sample_platform_id	GPL1261
Sample_contact_name	Scott,Andrew,Ochsner
Sample_contact_email	sochsner@bcm.edu
Sample_contact_phone	713-798-6227
Sample_contact_laboratory	NURSA: Nuclear Receptor Signaling Atlas
Sample_contact_department	Molecular and Cellular Biology
Sample_contact_institute	Baylor College of Medicine
Sample_contact_address	One Baylor Plaza
Sample_contact_city	Houston
Sample_contact_state	TX
Sample_contact_zip/postal_code	77030
Sample_contact_country	USA
Sample_supplementary_file	ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM351nnn/GSM351698/suppl/GSM351698.CEL.gz
Sample_series_id	GSE14004
Sample_data_row_count	45101

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