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Series GSE46494 Query DataSets for GSE46494
Status Public on Oct 15, 2013
Title Natural genetic variation perturbs collaborative transcription factor binding required for enhancer selection and function
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Natural genetic variation between two mouse strains was used as a natural mutagenesis screen to test various aspects of the proposed model for enhancer selection and function.
Overall design Chromatin marks H3K4me2, H3K27Ac, and transcription factors PU.1, C/EBPa, and p65 were assessed by ChIP-Seq and GRO-Seq and RNA-Seq were used to measure gene expression in C57BL6/J and BALBc/J inbred mouse strains
Contributor(s) Glass CK
Citation(s) 24121437
Submission date Apr 30, 2013
Last update date May 15, 2019
Contact name Casey Romanoski
Organization name UCSD
Street address 9500 Gliman Dr.
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (40)
GSM1131238 PU.1 ChIP-Seq C57BL6/J no treatment
GSM1131239 PU.1 ChIP-Seq C57BL6/J 100 ng/ml Kdo2-LipidA 1 hr
GSM1131240 PU.1 ChIP-Seq BALBc/J no treatment
BioProject PRJNA200648
SRA SRP021902

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
GSE46494_GeneExpression.txt.gz 3.6 Mb (ftp)(http) TXT
GSE46494_RAW.tar 24.4 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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