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RNA-seq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

ABSTRACT: RNA-seq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

PROVIDER: PRJEB43003 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR5264370.fastq.gz	Fastqsanger.gz
	ERR5264380.fastq.gz	Fastqsanger.gz
	ERR5264390.fastq.gz	Fastqsanger.gz
	ERR5264400.fastq.gz	Fastqsanger.gz
	ERR5264371.fastq.gz	Fastqsanger.gz

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ATACseq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

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ChIP seq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

Project description:Using ChIP-Seq analysis we explore regulation of gene expression changes during inflammatory peritonitis induced by challenge with bacterial ligands administered via the intra-peritoneal route. A resuspended lypholised supernatant of Staphylococcus epidermidis (SES) was administered with or without ex vivo generated CD4+ T-cells (Th1-polarised) to understand the role of adaptive immune responses in shaping inflammatory processes. To study the role of Signal transducer and Activator of Transcription 1 and 3 (STAT1/STAT3) we performed ChIP-seq on peritoneal membrane sections isolated from wt and Il-6 knockout mice three hours post-challenge. Membrane sections were snap frozen in liquid nitrogen prior to downstream processing using established ChIP-seq protocols (Illumina Truseq).

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ATACseq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

Project description:To investigate how chromatin is shaped during inflammation geared towards the development of fibrosis in peritoneal tissue, we performed ATAC-seq in peritoneal membranes from wt and Il-6 knockout mice challenged with SES (a lyophilized cell-free supernatant prepared from Staphylococcus epidermidis ) together with Th1 polarised CD4+ T-cells administered via the intraperitoneal route. Peritoneal membrane was harvested 3 hours after injection, immediately snap-frozen in liquid nitrogen, and stored at -80C until processed. Tissues were diced and ground to a fine powder with intermittent addition of liquid nitrogen and Omni-ATAC-seq was performed.

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RNA-seq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

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Project description:RNA-seq: STAT1 and STAT3 transcription factors sense and interpret changes in inflammation through engagement of specific enhancers

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