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| Status |
Public on Mar 09, 2023 |
| Title |
CRISPR screens identify gene targets at breast cancer risk loci [RNA-seq] |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Genome-wide association studies (GWAS) have identified >200 loci associated with breast cancer (BC) risk. The majority of candidate causal variants (CCVs) are in non-coding regions and likely modulate cancer risk by regulating gene expression. However, pinpointing the exact target of the association, and identifying the phenotype it mediates, is a major challenge in the interpretation and translation of GWAS.
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| Overall design |
Transcriptome, open chromatin, and chromatin interaction profiling using RNA-seq, ATAC-seq and H3K27ac-mediated HiChIP of six immortalized mammary epithelial cell lines representing breast cells with either a luminal progenitor signature (K5+/K19+, K5+/K19-), a mesenchymal signature (B80-T17, mesHMLE) or a more epithelial like signature (B80-T5, HMLE)
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| Contributor(s) |
Beesley J |
| Citation(s) |
36991492 |
| |
| Submission date |
Dec 01, 2022 |
| Last update date |
Jun 08, 2023 |
| Contact name |
Jonathan Beesley |
| E-mail(s) |
jonathan.beesley@qimrberghofer.edu.au
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| Organization name |
QIMR Berghofer
|
| Street address |
300 Herston Rd Herston
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| City |
Brisbane |
| State/province |
QLD |
| ZIP/Postal code |
4006 |
| Country |
Australia |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE219168 |
CRISPR screens identify gene targets at breast cancer risk loci |
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| Relations |
| BioProject |
PRJNA907298 |
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