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| Status |
Public on Apr 15, 2017 |
| Title |
Expression data from CIC wild type and knockout cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
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| Summary |
Type I low-grade gliomas (LGGs), characterized by 1p/19q co-deletions and IDH1/2 mutations, show superior overall survival compared to other gliomas. Approximately 70% of cases harbour mutations in the Capicua (CIC) gene, whose product is a transcriptional repressor whose transcriptional network has yet to be extensively studied in human cells. To address this, we developed CIC knockout cell lines and used transcriptome analyses to study the consequences of CIC loss. Results were further compared to data for Type I LGGs and stomach adenocarcinomas from The Cancer Genome Atlas (TCGA). We find that CIC appears to regulate the expression of genes involved in cell-cell adhesion and nervous system development. CIC deficiency is also found to be associated with a MEK activation transcriptional signature and to act as an effector of MEK signalling. Loss of CIC may thus present a novel mechanism for the dysregulation of this and other oncogenic pathways.
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| Overall design |
Two CIC knockout cell lines (D10 and A9) were obtained using the CRIPSR/Cas9 system and a third (D1) was obtained using the ZFN system. The parental (HEK) cell line is included, along with two CIC wild type cell lines that were submitted to the CRISPR/Cas9 process.
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| Contributor(s) |
LeBlanc VG, Firme M, Song J, Chan SY, Lee A, Yip S, Chittaranjan S, Marra MA |
| Citation(s) |
28295365 |
| Submission date |
Apr 18, 2016 |
| Last update date |
Mar 15, 2019 |
| Contact name |
Marco A Marra |
| E-mail(s) |
mmarra@bcgsc.ca
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| Organization name |
Canada's Michael Smith Genome Sciences Centre
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| Street address |
675 W 10th Ave, 7th Floor
|
| City |
Vancouver |
| State/province |
BC |
| ZIP/Postal code |
V5Z 1L3 |
| Country |
Canada |
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| Platforms (1) |
| GPL16686 |
[HuGene-2_0-st] Affymetrix Human Gene 2.0 ST Array [transcript (gene) version] |
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| Samples (6)
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| Relations |
| BioProject |
PRJNA318740 |
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