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Sample GSM873431 Query DataSets for GSM873431
Status Public on Apr 11, 2013
Title Chop-/- Tm-RNA-seq
Sample type SRA
 
Source name Mouse embronic fibroblast
Organism Mus musculus
Characteristics cell type: Mouse embryonic fibroblast
developmental stage: 11.5-12.5 days
strain: C57BL/6
genotype/variation: Chop-/-
treatment: Tunicamycin
Treatment protocol MEFs were treated with tunicamycin for 10hr. After treatment, chromatin immunoprecipitation or RNA isolation were performed.
Growth protocol Mouse embryonic fibroblast cells were rountinely subcultured in high-glucose DMEM supplemented with 10% FBS, Pen/Strep, NEAA (all invitorgen) on cell culture dishes.
Extracted molecule total RNA
Extraction protocol unknown
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina Genome Analyzer
 
Description CHOP KO Treatment
Data processing ERANGE was used to create .rds database files and then wig files with -raw option turned on.
ChIP-Seq peaks were identified using ERANG with default settings
rpkm files: mm9
 
Submission date Feb 09, 2012
Last update date May 15, 2019
Contact name Maureen A Sartor
E-mail(s) sartorma@med.umich.edu
Organization name University of Michigan
Department Department of Computational Medicine and Bioinformatics
Lab Sartor
Street address 2017 Palmer Commons Bldg., 100 Washtenaw Ave
City Ann Arbor
State/province MI
ZIP/Postal code 48109-2218
Country USA
 
Platform ID GPL9185
Series (1)
GSE35681 ChIP-seq and mRNA-seq experiment to find the direct target genes of ATF4 and CHOP
Relations
SRA SRX119357
BioSample SAMN00787462

Supplementary file Size Download File type/resource
GSM873431_run55_s5_CKOTm.final.rpkm.gz 237.7 Kb (ftp)(http) RPKM
GSM873431_run56_s3_CKOTm.final.rpkm.gz 236.5 Kb (ftp)(http) RPKM
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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