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| Status |
Public on Dec 28, 2021 |
| Title |
Combinatorial Gene Essentiality and Pharmacological Profiling uncovers enhancer-mediated synthetic lethal interactions with Mediator Kinase [RNA-Seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Depletion of CDK8 and its paralogue CDK19, resulted in a global down regulation of mRNA expression, and hence we went to investigate the binding of RNA pol II by ChIP seq at the promoter and at the gene body in the DKO cells. To determine the consequence of loss of CDK8/19 in re-defining enhancers and to underpin the molecular mechanism that providing the preferential BET sensitivity for DKO, we performed ChIP sequencing for MED12, a reminiscent mediator kinase component, BRD4 and H3K27Ac. We identified that MED12 redefines the enhancer landscape in the absence of CDK8/19, recruit BRD4 at the cis regions and can be targeted using BET inhibitors
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| |
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| Overall design |
RNA samples from HCT116-WT, DKO, CDK8KO, CDK19KO, HCT116-WT+JQ1, DKO+JQ1
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| |
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| Contributor(s) |
Firestein R, Sooraj D, Sun CX |
| Citation(s) |
34910943 |
| Submission date |
Dec 24, 2020 |
| Last update date |
Dec 28, 2021 |
| Contact name |
Ron Firestein |
| E-mail(s) |
firesteinlab.ncbi@gmail.com
|
| Organization name |
Hudson Institute of Medical Research
|
| Department |
CCR
|
| Lab |
Functional Genomics
|
| Street address |
21 Wright street
|
| City |
Clayton |
| State/province |
VIC |
| ZIP/Postal code |
3168 |
| Country |
Australia |
| |
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| Platforms (1) |
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| Samples (26)
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| This SubSeries is part of SuperSeries: |
| GSE163820 |
Combinatorial Gene Essentiality and Pharmacological Profiling uncovers enhancer-mediated synthetic lethal interactions with Mediator Kinase |
|
| Relations |
| BioProject |
PRJNA687682 |
| SRA |
SRP299261 |
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