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Sample GSM2732502 Query DataSets for GSM2732502
Status Public on Aug 05, 2017
Title Liver_Human_Transgenic_SREBP1a_chipC_rep1
Sample type RNA
 
Source name Liver, transgenic SREBP-1a mouse
Organism Mus musculus
Characteristics genotype: TgSREBP-1a
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 9.30347186377388
128523_at 2.63437158578806
128529_at 4.35229738286946
128550_at 5.67990616396982
128554_at 5.19352106175536
128577_s_at 4.42912073974676
128578_r_at 3.6973767166697
128579_r_at 4.7646200387644
128580_at 5.65115562247167
128582_at 5.12825086613849
128583_at 4.59672566308903
128590_at 5.01623951839967
128624_at 3.63299371606983
128643_r_at 7.79241210470317
128644_at 7.05233697520773
128645_at 5.50260806143135
128646_at 4.50060691966722
128647_at 6.50361352590595
128651_at 6.86754947848511
128652_at 4.83176100536075

Total number of rows: 11934

Table truncated, full table size 322 Kbytes.




Supplementary file Size Download File type/resource
GSM2732502_NormaBP1a_C.CEL.gz 2.6 Mb (ftp)(http) CEL
Processed data included within Sample table

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