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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 12, 2024 |
| Title |
Disruption of RNAPII transcription elongation links Oncogenic splicing factor mutations to replciation stress and targetable alterations in chromatin landscape [Murine ChIP-Seq] |
| Organism |
Mus musculus |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
To investigate changes in Pol2 distribution in response to SF3B1 mutations, we peformed ChIP-seq using antibody against Pol2 (both CTD and elongation specific (Ser2P and Ser5p). For the murine model, SF3B1 mutant (and WT counterparts) were treated with tamoxifen daily x 5 days at 5 weeks of age. Mice were euthanized at end of week 7 and bone marrow was harvested to isolate lineage negative cells
We then performed coverage plot analysis using data obtained from ChIP-seq from IP fractions to investigate Pol2 distribution changes
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| Overall design |
ChIP-seq against Pol2 in murine lineage negative marrow cells (wild type vs SF3B1K700E mutant) at 2 weeks post induction
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| Web link |
https://www.biorxiv.org/content/10.1101/2023.02.25.530019v3.full
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| Contributor(s) |
Prajwal B, Manoj P |
| Citation(s) |
38521065 |
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| Submission date |
Jan 31, 2024 |
| Last update date |
Jun 11, 2024 |
| Contact name |
MANOJ PILLAI |
| E-mail(s) |
MANOJ.PILLAI@YALE.EDU
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| Organization name |
YALE UNIVERSITY
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| Lab |
PILLAI LAB
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| Street address |
300 GEORGE STREET #786
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| City |
NEW HAVEN |
| State/province |
CT |
| ZIP/Postal code |
06511 |
| Country |
USA |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (8)
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| GSM8057837 |
Mouse cells, SF3B1 Sf3b1K700E, replicate 1, Ser5P CTD |
| GSM8057838 |
Mouse cells, WT, replicate 2, Ser5P CTD |
| GSM8057839 |
Mouse cells, SF3B1 Sf3b1K700E, replicate 2, Ser5P CTD |
| GSM8057840 |
Mouse cells, WT, Ser2P CTD |
| GSM8057841 |
Mouse cells, SF3B1 Sf3b1K700E, Ser2P CTD |
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| This SubSeries is part of SuperSeries: |
| GSE226003 |
Disruption of RNAPII transcription elongation links Oncogenic splicing factor mutations to replciation stress and targetable alterations in chromatin landscape. |
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| Relations |
| BioProject |
PRJNA1071703 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE254792_RAW.tar |
1.7 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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