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| Status |
Public on Dec 16, 2020 |
| Title |
CRISPRi screen of prostate cancer associated risk cis-regulatory elements [RNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Prostate cancer (PCa) associated risk SNPs are enriched in cis-regulatory elements (CREs). In this study, we screened 260 CREs that contain at least one PCa risk SNP for essentiality in V16A, 22Rv1 and A549 cells. We tiled the CREs and 14 control regions using 5,873 sgRNAs.
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| |
|
| Overall design |
A pooled library of cells lacking individial CREs or control regions was generated using CRISPR/dCas9-KRAB suppression technique. The regions were targeted using a custom sgRNA library. The cell DNA were extracted at day 0 and day 16, and the abundance of sgRNA was estimated using NGS.
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| |
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| Contributor(s) |
He HH |
| Citation(s) |
33741908 |
| |
| Submission date |
Jan 01, 2020 |
| Last update date |
Apr 20, 2021 |
| Contact name |
Musaddeque Ahmed |
| E-mail(s) |
[email protected]
|
| Organization name |
University health Network
|
| Lab |
He Lab
|
| Street address |
101 College St
|
| City |
Toronto |
| State/province |
ON |
| ZIP/Postal code |
M5G1L7 |
| Country |
Canada |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE142811 |
CRISPRi screen of prostate cancer associated risk cis-regulatory elements |
|
| Relations |
| BioProject |
PRJNA598431 |
| SRA |
SRP239223 |
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