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| Status |
Public on Jan 25, 2023 |
| Title |
A combinatorial approach to uncover a novel Integrator subunit [ChIP-seq I] |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The Integrator complex is one of the most elusive transcriptional regulators in metazoans, deemed to be recruited after initiation to help establish and modulate paused RNAPII. Recent structural, biochemical, and functional evidence suggest that Integrator is composed of 14 subunits, assembling, and operating in a modular fashion. We employed proteomics and machine-learning (alphafold2) approaches to discover a novel Integrator subunit, INTS15. We report that INTS15 assembles primarily with the INTS10-INTS13-INTS14 module and interfaces with the Int-PP2A phosphatase module. Functional genomics analysis further reveals a role for INTS15 in modulating RNAPII pausing at a subset of genes in human cell lines.
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| Overall design |
C7orf26 (INTS15) was ChIPed in WT HeLa and HL-60 cells after stimulation. ChIP-seq for RNA polymerase II was done in HeLa cells that were treated with shRNAs for C7orf26 or Luciferase (control).
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| Contributor(s) |
Offley SR, Gardini A |
| Citation(s) |
36920904 |
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| Submission date |
May 26, 2022 |
| Last update date |
Sep 11, 2023 |
| Contact name |
Sarah R Offley |
| E-mail(s) |
offley@upenn.edu, soffley@wistar.org, Sarah.offley@pennmedicine.upenn.edu
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| Organization name |
The Wistar Institute
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| Lab |
Alessandro Gardini
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| Street address |
3601 Spruce St
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| City |
Philadelphia |
| State/province |
Pennsylvania |
| ZIP/Postal code |
19103 |
| Country |
USA |
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| Platforms (2) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL30173 |
NextSeq 2000 (Homo sapiens) |
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| Samples (16)
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| GSM6202500 |
HL-60, PMA, C7orf26, biol rep2 |
| GSM6202501 |
HeLa, Ctrl, C7orf26, biol rep1 |
| GSM6202502 |
HeLa, EGF, C7orf26, biol rep1 |
| GSM6202503 |
HeLa, Ctrl, C7orf26, biol rep2 |
| GSM6202504 |
HeLa, EGF, C7orf26, biol rep2 |
| GSM6202505 |
HeLa, shC7orf26, Ctrl, RNAPII, biol rep1 |
| GSM6202506 |
HeLa, shC7orf26, EGF, RNAPII, biol rep1 |
| GSM6202507 |
HeLa, shLUC, Ctrl, RNAPII, biol rep1 |
| GSM6202508 |
HeLa, shLUC, EGF, RNAPII, biol rep1 |
| GSM6202509 |
HeLa, shLUC, Ctrl, RNAPII, biol rep2 |
| GSM6202510 |
HeLa, shLUC, EGF, RNAPII, biol rep2 |
| GSM6202511 |
HeLa, shC7orf26, Ctrl, RNAPII, biol rep2 |
| GSM6202512 |
HeLa, shC7orf26, EGF, RNAPII, biol rep2 |
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| This SubSeries is part of SuperSeries: |
| GSE204936 |
A combinatorial approach to uncover a novel Integrator subunit |
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| Relations |
| BioProject |
PRJNA842740 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE204932_RAW.tar |
2.1 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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