|
| Status |
Public on Nov 16, 2012 |
| Title |
OSKM factors cooperatively engage chromatin to initiate reprogramming |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Reprogramming cells from one fate to another, using transcription factors, generates cells for research and potential therapy, yet little is known about the initial engagement of reprogramming factors with the genome. We mapped the interactions between Oct4, Sox2, Klf4, and c-Myc (OSKM) and the human genome during the first 48 hours of cellular reprogramming to pluripotency. Unlike that reported in ES/iPS cells, we find extensive overlap in the initial binding of OSKM, demonstrating that the initial regulatory network differs markedly from that in pluripotency. OSK act as pioneer factors for c-Myc, and c-Myc enhances the engagement of OSK, including at many genes that are required for conversion to pluripotency. Distal enhancer sites in closed chromatin dominate the initial OSKM distribution. Hierarchical chromatin binding during reprogramming resembles that employed during development.
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| |
|
| Overall design |
Four chIP-seq data sets (Oct4, Sox2, Klf4, and c-Myc) are included, one lane per factor, no replicates. Also included is an input lane from the same conditions and two mock lentiviral controls (no exogenous OSKM factors) treated with Oct4 IP and c-Myc IP.
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| |
|
| Contributor(s) |
Soufi A, Donahue G, Zaret KS |
| Citation(s) |
23159369 |
| |
| Submission date |
Mar 16, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Kenneth S. Zaret |
| E-mail(s) |
zaret@pennmedicine.upenn.edu
|
| Phone |
2155735813
|
| Organization name |
University of Pennsylvania School of Medicine
|
| Department |
Cell and Developmental Biology
|
| Lab |
Zaret lab
|
| Street address |
9-132, SCTR, 3400 Civic Center Boulevard
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104-5157 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
|
| Samples (7)
|
| GSM896985 |
Oct4 ChIP-Seq at 48hrs Post-Induction |
| GSM896986 |
Sox2 ChIP-Seq at 48hrs Post-Induction |
| GSM896987 |
Klf4 ChIP-Seq at 48hrs Post-Induction |
| GSM896988 |
c-Myc ChIP-Seq at 48hrs Post-Induction |
| GSM896989 |
DNA Input ChIP-Seq at 48hrs Post-Induction |
| GSM1000575 |
Oct4 ChIP-Seq at 48hrs Mock Induction |
| GSM1000576 |
c-Myc ChIP-Seq at 48hrs Mock Induction |
|
| Relations |
| SRA |
SRP011557 |
| BioProject |
PRJNA153727 |
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