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GEO help: Mouse over screen elements for information. |
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| 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
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| 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.
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| Overall design |
Genome-wide mapping of STAT5 binding in MEF cells (WT, KO; Stat5-/- and overexpression; STAT5A-Stat5-/-) upon growth hormone induction
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| Contributor(s) |
Zhu BM, Kang K, Yu JH, Chen W, Smith HE, Lee D, Sun HW, Wei L, Hennighausen L |
| Citation(s) |
22319210 |
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| Submission date |
Jan 10, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Keunsoo Kang |
| E-mail(s) |
[email protected]
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| Phone |
82-41-550-3456
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| Organization name |
Dankook University
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| Department |
Microbiology
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| Lab |
Computational Biology Lab
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| Street address |
Dandae-ro 119
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| City |
Cheonan |
| State/province |
Chungnam |
| ZIP/Postal code |
31116 |
| Country |
South Korea |
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| Platforms (1) |
| GPL13112 |
Illumina HiSeq 2000 (Mus musculus) |
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| Samples (12)
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| Relations |
| SRA |
SRP010261 |
| BioProject |
PRJNA151085 |
| 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 |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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