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Sample GSM1067688 Query DataSets for GSM1067688
Status Public on Apr 01, 2013
Title Negative control shRNA transduced cells, treated with 10µM isoproterenol for 3 hrs, replicate 2
Sample type RNA
 
Source name Negative control shRNA transduced cells, treated with 10µM isoproterenol for 3 hrs
Organism Mus musculus
Characteristics cell type: 3T3-L1 adipocytes
vector: Control shRNA
treatment: 10µM isoproterenol, 3 hrs
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 and 10µM isoproterenol for 3 hrs
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
ID_REF
VALUE quantile normalized signal

Data table
ID_REF VALUE
AFFX-BioB-5_at 9.015625
AFFX-BioB-M_at 9.630859
AFFX-BioB-3_at 9.275391
AFFX-BioC-5_at 10.19922
AFFX-BioC-3_at 10.5332
AFFX-BioDn-5_at 11.29492
AFFX-BioDn-3_at 12.44141
AFFX-CreX-5_at 13.74023
AFFX-CreX-3_at 13.9668
AFFX-DapX-5_at 8.189453
AFFX-DapX-M_at 9.421875
AFFX-DapX-3_at 10.1543
AFFX-LysX-5_at 6.608398
AFFX-LysX-M_at 6.946289
AFFX-LysX-3_at 7.489258
AFFX-PheX-5_at 7.126953
AFFX-PheX-M_at 7.197266
AFFX-PheX-3_at 7.764648
AFFX-ThrX-5_at 6.949219
AFFX-ThrX-M_at 7.132813

Total number of rows: 16553

Table truncated, full table size 294 Kbytes.




Supplementary file Size Download File type/resource
GSM1067688_Liebert_290910_8-c-3T3L1-shNC+10uM-Iso_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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