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Series GSE53971 Query DataSets for GSE53971
Status Public on Jul 11, 2014
Title Wnt/beta-catenin-signaling in immortalized mouse adrenocortical cell line ATCL7
Organism Mus musculus
Experiment type Expression profiling by array
Summary In order to investigate genes regulated by Wnt/Beta-catenin-signaling in immortalized mouse adrenocortical cells, we treated a pair of ATCL7 cell cultures, one with BIO, a small molecule mimicking Wnt/Beta-catenin-signaling, the other with a control treatment. We repeated this 3 additional times resulting in 4 pairs of samples. The Wnt/beta-catenin pathway is not basally active in ATCL7 cells, nor do these cells appear to contain any mutations in the Wnt/Beta-catenin pathway. ATCL7 cells were grown under standard conditions at 37°C in a humidified incubator containing 5% CO2. 250,000 ATCL7 cells per sample were treated with 0.5uM BIO (6-Bromoindirubin-3'-oxime) or 0.01% DMSO (v/v) for 24 hours, in DMEM:F12 growth media containing 100U/mL pencillin/streptomycin, 1X insulin-transferrin-selenium-X, 0.025% fetal bovine serum and 0.025% horse serum. Cells were harvested and RNA was extracted using an RNeasy Plus Mini Kit (Qiagen). Biotinylated cDNA were prepared according to the Ambion WT kit protocol from 250 ng total RNA (GeneAtlas™ WT Expression Kit User Manual P/N 702935 Rev. 3). We assayed the targets with Affymetrix Mouse Gene ST 1.1 strip arrays. We modeled the data using paired T-tests for each probe-set. We also supply a supplementary file holding the data and some statistical analysis, as well as probe-set annotation that we used at that time (users may wish to obtain new annotation though). We analyzed only 28944 probe-sets with category "main", "---", and "flmrna->unmapped" according to Affymetrix annotation.
 
Overall design ATCL7 cells were grown under standard growth conditions at 37°C in a humidified incubator containing 5% CO2. 250,000 ATCL7 cells per sample were treated for 24 hours with 0.5uM BIO (6-Bromoindirubin-3'-oxime) or 0.01% DMSO (v/v) in growth media containing 100U/mL pencillin/streptomycin, 1X insulin-transferrin-selenium-X, 0.025% fetal bovine serum and 0.025% horse serum. Cells were harvested and RNA was extracted using an RNeasy Plus Mini Kit (Qiagen). Biotinylated cDNA were prepared according to the Ambion WT kit protocol from 250 ng total RNA (GeneAtlas™ WT Expression Kit User Manual P/N 702935 Rev. 3). We assayed the targets with Affymetrix Mouse Gene ST 1.1 strip arrays.
 
Contributor(s) Walczak E, Kuick R, Hammer G
Citation(s) 25029241
Submission date Jan 09, 2014
Last update date Apr 18, 2017
Contact name Rork Kuick
E-mail(s) rork@umich.edu
Phone 734-936-9241
Organization name University of Michigan
Street address University of Michigan, SPH II, 1415 Washington Heights, Room M2533
City Ann Arbor
State/province MI
ZIP/Postal code 48109-2029
Country USA
 
Platforms (1)
GPL11533 [MoGene-1_1-st] Affymetrix Mouse Gene 1.1 ST Array [transcript (gene) version]
Samples (8)
GSM1304682 Vehicle-treated adrenocortical cancer cells from pair #1
GSM1304683 Vehicle-treated adrenocortical cancer cells from pair #2
GSM1304684 Vehicle-treated adrenocortical cancer cells from pair #3
Relations
BioProject PRJNA234069

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE53971_RAW.tar 37.2 Mb (http)(custom) TAR (of CEL)
GSE53971_supplementA1.xlsx.gz 8.5 Mb (ftp)(http) XLSX
Processed data included within Sample table
Processed data are available on Series record

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