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Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells [ATAC-seq]

ABSTRACT: Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells [ATAC-seq]

PROVIDER: PRJNA792586 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17335859_1.fastq.gz	Fastqsanger.gz
	SRR17335859_2.fastq.gz	Fastqsanger.gz
	SRR17335860_1.fastq.gz	Fastqsanger.gz
	SRR17335860_2.fastq.gz	Fastqsanger.gz
	SRR17335861_1.fastq.gz	Fastqsanger.gz

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Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells.

Project description:Histone dimethyl transferase WHSC1 drives the transcription of MHC-I machinery in mouse and human colorectal cancer cells (CRCs); thus, WHSC1 downregulation potentiates CRCs to escape from cytotoxic CD8+ T cell responses. WHSC1 directly interacts with MHC-I transactivator, NLRC5 to selectively stimulate MHC-I gene expression. Thus, silencing Whsc1 diminished MHC-I level, impaired anti-tumor immunity and blunted immunotherapy efficacy.

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Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells.

Project description:Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells.

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Genome-wide maps of chromatin state in WT and Whsc1 ko or Nlrc5 ko CT26 cells [ATAC-seq]

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Project description:NLRC5 is a member of the NLR family of proteins. The observation that NLRC5 is found in the nucleus prompted us to perform a gene array to identify putative target genes of NLRC5. We generated Jurkat T cell lines that stably express either the wild-type or mutant forms of NLRC5 harboring mutations in the nucleotide binding domain (NBD): Walker A (deficient in nucleotide binding), Walker B (deficient in nucleotide hydrolysis), and the combined Walker AB, carrying both mutations. Site-directed mutagenesis was used to create the NLRC5 NBD mutants: Walker A (K234A), Walker B (E311Q), and Walker AB (both mutations). We compared the expression profiles of Jurkat T cells expressing GFP, or the GFP-tagged wild-type, Walker A, Walker B, or Walker AB forms of NLRC5. GFP and the Walker A and Walker AB forms of NLRC5 were considered functionally inactive, while the wild-type and Walker B forms of NLRC5 were considered functionally active. These groups were used as biological replicates to assess the effect of NLRC5 activity on gene expression.

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NLRC5 specifically transactivates MHC class I and related genes through a distinctive SXY module

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