|
| Status |
Public on May 19, 2011 |
| Title |
Mesothelioma cell lines SNP data copy number analysis |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
SNP genotyping by SNP array
|
| Summary |
Malignant pleural mesotheliomas (MPMs) often show CDKN2A and NF2 inactivation but other highly recurrent mutations have not been described. To identify additional driver genes, we used an integrated genomic analysis of 53 MPM tumor samples to guide a focused sequencing effort that uncovered somatic inactivating mutations in BAP1 in 23% of MPM. The BAP1 nuclear deubiquitinase is known to target histones (together with ASXL1 as a Polycomb repressor subunit) and the HCF1 transcriptional co-factor, and we show that BAP1 knockdown in MPM cell lines affects E2F and Polycomb target genes. These findings implicate transcriptional deregulation in the pathogenesis of MPM.
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| |
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| Overall design |
Genomic DNA was harvested from untreated malignant pleural mesothelioma (MPM) cell lines and used to generate gain/loss profiles for each line using aCGH.
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| Contributor(s) |
Ladanyi M, Bott M |
| Citation(s) |
21642991 |
| |
| Submission date |
May 18, 2011 |
| Last update date |
May 17, 2017 |
| Contact name |
Yupu Liang |
| E-mail(s) |
liangy@rockefeller.edu
|
| Organization name |
The Rockefeller University
|
| Street address |
1230 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL3718 |
[Mapping250K_Nsp] Affymetrix Mapping 250K Nsp SNP Array |
|
| Samples (25)
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| This SubSeries is part of SuperSeries: |
| GSE29211 |
The nuclear deubiquitinase BAP1 is commonly inactivated by somatic mutations and 3p21.1 losses in malignant pleural mesothelioma |
|
| Relations |
| BioProject |
PRJNA142991 |
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