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Sample GSM1067684 Query DataSets for GSM1067684
Status Public on Apr 01, 2013
Title TBLR1 specific shRNA transduced cells, not treated with isoproterenol, replicate 1
Sample type RNA
Source name TBLR1 specific shRNA transduced cells, not treated with isoproterenol
Organism Mus musculus
Characteristics cell type: 3T3-L1 adipocytes
vector: TBLR1 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 TBLR1 specific 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 8.699219
AFFX-BioB-M_at 9.279297
AFFX-BioB-3_at 8.974609
AFFX-BioC-5_at 9.947266
AFFX-BioC-3_at 10.3457
AFFX-BioDn-5_at 11.13086
AFFX-BioDn-3_at 12.40234
AFFX-CreX-5_at 13.74023
AFFX-CreX-3_at 14.02539
AFFX-DapX-5_at 8.068359
AFFX-DapX-M_at 9.289063
AFFX-DapX-3_at 10.08789
AFFX-LysX-5_at 6.505859
AFFX-LysX-M_at 6.821289
AFFX-LysX-3_at 7.373047
AFFX-PheX-5_at 7.03418
AFFX-PheX-M_at 7.103516
AFFX-PheX-3_at 7.633789
AFFX-ThrX-5_at 6.788086
AFFX-ThrX-M_at 6.999023

Total number of rows: 16553

Table truncated, full table size 294 Kbytes.

Supplementary file Size Download File type/resource
GSM1067684_Liebert_290910_4-b-3T3L1-shTBLR-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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