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Series GSE34986 Query DataSets for GSE34986
Status Public on Jan 12, 2012
Title Genome-wide analyses reveal the extent of opportunistic STAT5 binding that does not yield transcriptional activation of neighboring genes.
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Signal Transducers and Activators of Transcription (STAT) 5A/B regulate cytokine-inducible genes upon binding to GAS motifs. It is not known what percentage of genes with GAS motifs bind to and are regulated by STAT5. Moreover, it is not clear whether genome-wide STAT5 binding is modulated by its concentration. To clarify these issues we established genome-wide STAT5 binding upon growth hormone (GH) stimulation of wild type mouse embryonic fibroblasts (MEFs) and MEFs overexpressing STAT5A more than 20-fold. Upon GH stimulation 23,827 and 111,939 STAT5A binding sites were detected in wild type and STAT5A overexpressing MEFs, respectively. 13,278 and 71,561 peaks contained at least one GAS motif. 1,586 and 8,613 binding sites were located within 2.5 kbp of promoter sequences, respectively. Stringent filtering revealed 78 genes in which the promoter/upstream region (-10kbp to +0.5kbp) was recognized by STAT5 both in wt and STAT5 overexpressing MEFs and 347 genes that bound STAT5 only in overexpressing cells. Genome-wide expression analyses identified that the majority of STAT5-bound genes was not under GH control. Up to 40% of STAT5-bound genes were not expressed. For the first time we demonstrate the magnitude of opportunistic genomic STAT5 binding that does not translate into transcriptional activation of neighboring genes.
Overall design Genome-wide mapping of STAT5 binding in MEF cells (WT, KO; Stat5-/- and overexpression; STAT5A-Stat5-/-) upon growth hormone induction
Contributor(s) Zhu BM, Kang K, Yu JH, Chen W, Smith HE, Lee D, Sun HW, Wei L, Hennighausen L
Citation(s) 22319210
Submission date Jan 10, 2012
Last update date May 15, 2019
Contact name Keunsoo Kang
Phone 82-41-550-3456
Organization name Dankook University
Department Microbiology
Lab Computational Biology Lab
Street address Dandae-ro 119
City Cheonan
State/province Chungnam
ZIP/Postal code 31116
Country South Korea
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (12)
SRA SRP010261
BioProject PRJNA151085

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Supplementary file Size Download File type/resource
GSE34986_mm9_OE-GH2_repeat_STAT5_Peaks.bed.gz 772.3 Kb (ftp)(http) BED
GSE34986_mm9_OE-GH2_repeat_STAT5_Peaks.bedgraph.gz 16.9 Mb (ftp)(http) BEDGRAPH
GSE34986_mm9_OE-GH_STAT5_Peaks.bed.gz 752.6 Kb (ftp)(http) BED
GSE34986_mm9_OE-GH_STAT5_Peaks.bedgraph.gz 110.1 Mb (ftp)(http) BEDGRAPH
GSE34986_mm9_OE_STAT5_Peaks.bedgraph.gz 72.3 Mb (ftp)(http) BEDGRAPH
GSE34986_mm9_WT-GH_STAT5_Peaks.bed.gz 151.1 Kb (ftp)(http) BED
GSE34986_mm9_WT-GH_STAT5_Peaks.bedgraph.gz 18.6 Mb (ftp)(http) BEDGRAPH
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