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Status |
Public on Jun 29, 2020 |
Title |
Reciprocal gene editing defines targetable mutant H3.3 oncohistone effectors in pediatric glioma |
Organism |
Homo sapiens |
Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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Summary |
High-grade pediatric gliomas often contain histone H3.3 mutations, but open questions remain about oncogenic mechanisms. To address this gap, we performed ‘reciprocal gene editing’ using CRISPR-Cas9 to introduce H3.3 mutations (K27M, G34R) into H3.3-wildtype brain and glioma cells, while in parallel reverting pre-existing K27M mutations in glioma cells back to wildtype. Analyses of our reciprocally-edited cells indicate that H3.3 mutation leads to specific transcriptomic and epigenetic events, and associated cell biological changes including in xenograft assays. We used these data and the reciprocally-edited cells to screen selected drugs and identify specific putative treatments that are mutant H3.3-specific. Overall, reciprocal gene editing provides new insights into mutant H3.3 oncogenic mechanisms and more broadly may prove useful for studying other cancer-associated mutations.
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Overall design |
We used CRISPR-Cas9 gene editing of H3F3A to precisely revert preexisting K27M mutations to WT in patient-derived glioma cells to identify consistently functionally important effectors. Two replicates of H3K27me3 and two replicates of H3.3 ChIP-Seq were performed in each of the following cell lines: Line XIII, Line XIII WT, Line XVII, Line XVII WT.
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Contributor(s) |
Klein R, Knoepfler P |
Citation(s) |
32647372 |
Submission date |
Apr 12, 2019 |
Last update date |
Jul 20, 2020 |
Contact name |
Paul Knoepfler |
E-mail(s) |
knoepfler@ucdavis.edu
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Organization name |
University of California Davis
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Department |
Cell Biology and Human Anatomy
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Street address |
2425 Stockton Blvd, Room 633
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City |
Sacramento |
State/province |
CA |
ZIP/Postal code |
95817 |
Country |
USA |
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Platforms (1) |
GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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Samples (20)
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Relations |
BioProject |
PRJNA532652 |
SRA |
SRP192471 |