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Sample GSM1067682 Query DataSets for GSM1067682
Status Public on Apr 01, 2013
Title Negative control shRNA transduced cells, not treated with isoproterenol, replicate 2
Sample type RNA
Source name Negative control shRNA transduced cells, not treated with isoproterenol
Organism Mus musculus
Characteristics cell type: 3T3-L1 adipocytes
vector: Control shRNA
treatment: none
Treatment protocol Mature adipocytes 9 days after induction of differentiation were transduced with adenoviruses carrying shRNA against TBLR1 or a control sequence at a multiplicity of infection (MOI) of 500. After 3 days, cells were preincubated in Krebs-Ringer buffer for 2 hrs, then cells were stimulated with 10 µM isoproterenol for 3 hrs.
Growth protocol 3T3-L1 preadipocytes were cultured in low (1g/l) glucose DMEM medium containing 10% fetal calf serum (FCS) and 1% penicillin/streptomycin (P/S) and differentiated into mature white adipocytes two days post confluency by the addition of 1 µg/ml insulin, 0.5 mM 3-isobutyl-1-methylxanthine (IBMX), 0.25 µM dexamethasone and 1/1000 volume ABP (50 mg/ml L-ascorbate, 1 mM biotin, 17 mM pantothenate) in high (4.5 g/l) glucose DMEM containing 10% FCS and 1% P/S
Extracted molecule total RNA
Extraction protocol RNeasy Mini Kit (Quiagen)
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
Hybridization protocol Hybridization (16h x 45°C) was processed according to the standard Affymetrix protocol.
Scan protocol Affymetrix GeneArray Scanner3000
Description Gene expression data from 3T3-L1 adipocytes treated with negative control shRNA
Data processing The data were analyzed with a commercial software called JMP Genomics, version 4, from SAS. Gene expression profiling was performed using arrays of Mouse430_2 -type from Affymetrix. A Custom CDF Version 13 with Entrez based gene definitions was used to annotate the arrays. The Raw fluorescence intensity values were normalized applying quantile normalization.
Submission date Jan 22, 2013
Last update date Apr 01, 2013
Contact name Carsten Sticht
Organization name University Heidelberg
Department ZMF
Street address Theodor-Kutzer-Ufer
City Mannheim
ZIP/Postal code 68169
Country Germany
Platform ID GPL14661
Series (1)
GSE43658 Transcriptional co-factor TBLR1 controls lipid mobilization in white adipose tissue

Data table header descriptions
VALUE quantile normalized signal

Data table
AFFX-BioB-5_at 8.84375
AFFX-BioB-M_at 9.429688
AFFX-BioB-3_at 9.048828
AFFX-BioC-5_at 10.07617
AFFX-BioC-3_at 10.39648
AFFX-BioDn-5_at 11.21289
AFFX-BioDn-3_at 12.48242
AFFX-CreX-5_at 13.77539
AFFX-CreX-3_at 13.99805
AFFX-DapX-5_at 8.099609
AFFX-DapX-M_at 9.394531
AFFX-DapX-3_at 10.11328
AFFX-LysX-5_at 6.46582
AFFX-LysX-M_at 6.869141
AFFX-LysX-3_at 7.448242
AFFX-PheX-5_at 7.114258
AFFX-PheX-M_at 7.12793
AFFX-PheX-3_at 7.730469
AFFX-ThrX-5_at 6.745117
AFFX-ThrX-M_at 7.040039

Total number of rows: 16553

Table truncated, full table size 294 Kbytes.

Supplementary file Size Download File type/resource
GSM1067682_Liebert_290910_2-c-3T3L1-shNC-noIso_Mouse430_2_.CEL.gz 3.5 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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