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Comparing gene-expression profiles between control and CHD6 knock-down HCT116 cells

ABSTRACT: Comparing gene-expression profiles between control and CHD6 knock-down HCT116 cells

PROVIDER: PRJNA684951 | ENA |

REPOSITORIES: ENA

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Comparing gene-expression profiles between control and CHD6 knock-down HCT116 cells

Project description:Colorectal cancer is one of the most common cancers. Cancer cells are highly dependent on dysregulated gene expression to support their uncontrolled growth and high energy needs. The expression of gene encoding chromodomain helicase DNA binding protein 6 (CHD6) is frequently altered in tumor tissues of colorectal cancer patients.We performed transcriptomic analysis to identify the differentially expressed genes between control and CHD6 KD HCT116.

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Project description:Expression of a panel of miRNAs was analyzed in three different cell lines comparing stable knock down of ZEB1 (shZEB) to control transfected cell lines. The analyzed cell lines derived of mammary (MDA MB 231) or colon cancer (SW480, HCT116).

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Project description:Purpose: Study of the role of CHD6 linking nucleosome ejection in castration-resistant prostate cancer(CRPC) Method: The expression of CHD6 or E2F1 was silenced by 2 shRNAs (3 replicates) targeted at CHD6 or E2F1 in C4-2 cells, scramble RNA as control. mRNA profiles and genome-wide chromatin-state maps were generated by deep sequencing. CHD6 and IgG ChIP was conducted in C4-2 cells. MNase before and after CHD6-silenced was conducted in C4-2 cells. Results: E2F1 and E2F1 downstream genes were significantly down regulated by CHD6 knockdown. The binding of CHD6 on chromatin is required for nucleosome eviction in transcriptional activation of oncogenic pathways.

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