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Sample GSM1067681 Query DataSets for GSM1067681
Status Public on Apr 01, 2013
Title Negative control shRNA transduced cells, not treated with isoproterenol, replicate 1
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 8.890625
AFFX-BioB-M_at 9.408203
AFFX-BioB-3_at 9.095703
AFFX-BioC-5_at 10.04102
AFFX-BioC-3_at 10.40039
AFFX-BioDn-5_at 11.19531
AFFX-BioDn-3_at 12.4668
AFFX-CreX-5_at 13.77539
AFFX-CreX-3_at 13.92383
AFFX-DapX-5_at 8.236328
AFFX-DapX-M_at 9.460938
AFFX-DapX-3_at 10.15625
AFFX-LysX-5_at 6.62793
AFFX-LysX-M_at 6.844727
AFFX-LysX-3_at 7.380859
AFFX-PheX-5_at 7.055664
AFFX-PheX-M_at 7.169922
AFFX-PheX-3_at 7.780273
AFFX-ThrX-5_at 6.821289
AFFX-ThrX-M_at 7.038086

Total number of rows: 16553

Table truncated, full table size 294 Kbytes.

Supplementary file Size Download File type/resource
GSM1067681_Liebert_290910_1-b-3T3L1-shNC-noIso_Mouse430_2_.CEL.gz 3.6 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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