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CUT&RUN chromatin profiling of endogenously tagged and native BATF

ABSTRACT: CUT&RUN chromatin profiling of endogenously tagged and native BATF

PROVIDER: PRJNA427801 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6426140_1.fastq.gz	Fastqsanger.gz
	SRR6426140_2.fastq.gz	Fastqsanger.gz
	SRR6426141_1.fastq.gz	Fastqsanger.gz
	SRR6426141_2.fastq.gz	Fastqsanger.gz
	SRR6426132_1.fastq.gz	Fastqsanger.gz

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CUT&RUN chromatin profiling of endogenously tagged and native BATF

Project description:Primary human CD4+ T cells were isolated and an N-terminal GFP tag was inserted into the endogenous BATF locus. CUT&RUN using anti-GFP or anti-BATF antibodies was performed to assay chromatin occupancy. Libraries were prepared and sequenced on Illumina NextSeq platform.

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Project description:Increases in terminally exhausted T cells in the tumor are associated with poor responses to immunotherapy, yet the mechanisms that promote progression to terminal exhaustion remain undefined. We profiled the chromatin landscape of subsets of tumor-infiltrating CD8+ T cells using CUT&RUN. CD8 T cells were sorted from the murine B16 melanoma tumor using PD1 and Tim3 expression to define four subsets: PD1lo, PD1mid, PD1hi, and PD1hiTim3+. Additional control samples include paired CD44+ cells from the tumor-draining lymph node of tumor bearing mice, and OT-I effector CD8 T cells isolated from Vaccinia-ova infection. We performed CUT&RUN for H3K4me3, H3K27me3, H3K27ac, and H3K9ac, as well as the transcription factors Tox and Batf.

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Effect of Arid1a deletion on chromatin accessibility in antiviral effector CD8+ T cells. [Cut & Run]

Project description:To investigate the role of ARID1A in the regulation of transcription factor binding and histone modifications in effector CD8+ T cell responses, we crossed GzmB-Cre P14 Thy1.1 mice with Arid1a-fl/fl mice to generate Arid1a KO mice. We then performed CUT&RUN against ARID1A, BATF, ETS, Tbet, H3K27ac, H3K27me3 in WT, Arid1a KO, or Tbx21 (Tbet) KO cells in vivo at d0, 48h in vitro activated, d5, and d8 post-LCMV Armstrong infection.

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BATF knockout B cells

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Bulk Cut&run and Cut&tag

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