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Series GSE57415 Query DataSets for GSE57415
Status Public on May 08, 2014
Title Molecular architecture of transcription factor hotspots in early adipogenesis
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Here, we have used digital genomic footprinting to precisely define protein localization for several adipogenic transcription factors at a genome-wide level. In combination with ChIP-seq data, these analyses reveal novel molecular insight into the organization of transcription factors at hotpot regions, which provides a new framework for understanding transcription factor cooperativity on chromatin.
Overall design Digital genomic footprinting and gene expression in 3T3-L1 pre-adipocytes by high throughput sequencing.
Contributor(s) Siersbæk R, Baek S, Rabiee A, Nielsen R, Traynor S, Clark N, Sandelin A, Jensen ON, Sung M, Hager GL, Mandrup S
Citation(s) 24857666
Submission date May 07, 2014
Last update date May 15, 2019
Contact name Susanne Mandrup
Phone +45 6550 2340
Organization name University of Southern Denmark
Department Biochemistry and Molecular Biology
Street address Campusvej 55
City Odense M
ZIP/Postal code 5230
Country Denmark
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (10)
GSM1382275 DHS-seq, 3T3-L1 4h
GSM1382276 DHS-seq, 3T3-L1 4h (paired-end)
GSM1382277 RNA-seq Scr exp2, 3T3-L1 D0
BioProject PRJNA246418
SRA SRP041765

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
GSE57415_DHS4h_110615_FDR0_FINAL.bed.gz 1.0 Mb (ftp)(http) BED
GSE57415_DHS_4h_tagcount_136M.TD.ucsc.bedGraph.gz 73.1 Mb (ftp)(http) BEDGRAPH
GSE57415_RAW.tar 364.2 Mb (http)(custom) TAR (of BEDGRAPH)
GSE57415_fp_DHS4h_HS_thr0_FDR1_b90_rep10_maxw30_ac_dinuc_maxz0_fdr0.010000.bed.gz 3.5 Mb (ftp)(http) BED
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Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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