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Series GSE30399 Query DataSets for GSE30399
Status Public on Jul 09, 2011
Title Genome wide mapping for TF binding sites for Pol II, JunD, cFos, Max & cMyc in GM12878 (ENCODE Project)
Project ENCODE
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We performed ChIP-Seq for 5 different transcription factors (Pol II, JunD, cFos, Max and cMyc) as part of the ENCODE project in order to determine sites of allele-specific binding. This was done in the GM12878 cell line which was genotyped as part of the pilot II phase of the 1000 genomes project. There is a matching RNA-Seq experiemnt performed on the same cell line.

For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf
 
Overall design Mapping TF binding sites for 5 different TFs to assess allele-specific binding
Web link http://www.ncbi.nlm.nih.gov/geo/info/ENCODE.html
 
Contributor(s) Rozowsky J, Raha D, Snyder M, Gerstein M
Citation(s) 21811232
BioProject PRJNA63447
Submission date Jul 05, 2011
Last update date May 15, 2019
Contact name Joel Rozowsky
E-mail(s) rozowsky@csb.yale.edu
Phone 203-432-5405
Organization name Yale University
Department Molecular Biophysics & Biochemistry
Lab Gerstein Lab
Street address 266 Whitney Ave, Bass 437
City New Haven
State/province CT
ZIP/Postal code 06520
Country USA
 
Platforms (1)
GPL9115 Illumina Genome Analyzer II (Homo sapiens)
Samples (5)
GSM754330 Pol II ChIP-Seq
GSM754331 JunD ChIP-Seq
GSM754332 cFos ChIP-Seq
This SubSeries is part of SuperSeries:
GSE30401 AlleleSeq: Analysis of Allele-Specific Expression and Binding in a Network Framework
Relations
SRA SRP007418

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
GSE30399_RAW.tar 4.5 Gb (http)(custom) TAR (of NARROWPEAK, TAGALIGN)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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