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Sample GSM2732504 Query DataSets for GSM2732504
Status Public on Aug 05, 2017
Title Liver_Human_Transgenic_SREBP2_chipC_rep1
Sample type RNA
 
Source name Liver, transgenic SREBP-2 mouse
Organism Mus musculus
Characteristics genotype: TgSREBP-2
age: 12-16 weeks
Sex: Male
diet: high protein/low carbohydrate
tissue: Liver
exposure time: 2 weeks
Treatment protocol Livers were excised for RNA extraction
Growth protocol Mice were housed in colony cages in rooms maintained on a 12-h light/12-h dark cycle.
Extracted molecule total RNA
Extraction protocol Total RNA was prepared from each liver by using RNA STAT-60 (Tel-Test, Friendswood, TX)
Label biotin
Label protocol Equal aliquots of total RNA from each of five mouse livers in each group were pooled (total, 20 μg) and used for biotin labeling as described in the Affymetrix technical bulletin
 
Hybridization protocol Hybridization and washing of the Affymetrix GeneChip Murine Genome MU74A, -B, and -C version 2 arrays (Affymetrix, Santa Clara, CA) were carried out as described in: Mahadevappa, M. & Warrington, J. A. (1999) Nat. Biotechnol. 17, 1134–1136. Duplicate hybridizations were performed with each RNA sample.
Scan protocol Scanning, and analysis of the Affymetrix GeneChip Murine Genome MU74A, -B, and -C version 2 arrays (Affymetrix, Santa Clara, CA) were carried out as described in: Mahadevappa, M. & Warrington, J. A. (1999) Nat. Biotechnol. 17, 1134–1136.
Description Mice were fed a high protein/low carbohydrate diet for 2 weeks. This diet was used to elicit high-level expression of the nSREBPs
Data processing Gene expression results were analyzed by standard methods using Robust Multichip Average (RMA) normalization.
 
Submission date Aug 04, 2017
Last update date Jan 23, 2018
Contact name Christopher Corton
E-mail(s) corton.chris@epa.gov
Organization name US-EPA
Lab MD B105-01
Street address 109 TW Alexander Dr.
City Research Triangle Park
State/province NC
ZIP/Postal code 27711
Country USA
 
Platform ID GPL83
Series (2)
GSE102258 Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Cv2]
GSE102259 Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes

Data table header descriptions
ID_REF
VALUE RMA signal

Data table
ID_REF VALUE
128520_at 9.19344372281729
128523_at 2.825954945851
128529_at 4.27475865528147
128550_at 5.57655804779909
128554_at 5.20289873889619
128577_s_at 4.31766210564858
128578_r_at 3.52998824468642
128579_r_at 4.69904822014805
128580_at 5.80935479852128
128582_at 5.09193549311267
128583_at 4.3801544644498
128590_at 4.91503718526007
128624_at 3.6319924830041
128643_r_at 7.92861204550998
128644_at 7.01030837214206
128645_at 5.53989410468217
128646_at 4.64771944158781
128647_at 6.57853636412689
128651_at 6.92068612599549
128652_at 4.77861669476757

Total number of rows: 11934

Table truncated, full table size 322 Kbytes.




Supplementary file Size Download File type/resource
GSM2732504_NormaBP2_C.CEL.gz 2.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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