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Effect of SWI/SNF pertubations on H3K27ac levels during macrophage inflammatory activation [ChIP-seq_Histone]

ABSTRACT: Effect of SWI/SNF pertubations on H3K27ac levels during macrophage inflammatory activation [ChIP-seq_Histone]

PROVIDER: PRJNA1014765 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR25994018.fastq.gz	Fastqsanger.gz
	SRR25994019.fastq.gz	Fastqsanger.gz
	SRR25994020.fastq.gz	Fastqsanger.gz
	SRR25994021.fastq.gz	Fastqsanger.gz
	SRR25994022.fastq.gz	Fastqsanger.gz

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Effect of SWI/SNF pertubations on macrophage inflammatory activation [RNA-seq]

Project description:Effect of SWI/SNF pertubations on macrophage inflammatory activation [RNA-seq]

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Effect of SWI/SNF pertubations on H3K27ac levels during macrophage inflammatory activation [ChIP-seq_Histone]

Project description:To understand how macrophage histone modifications respond to LipidA stimulation, we profiled H3K27ac binding for WT BMDMs with 0hr or 4hr LipidA stimulation. In addition, we also profiled H3k27ac levels for WT BMDMs treated with ACBI1, BRM014, BRDK98, or dBrd9 and for Arid1A-/- and Pbrm1-/- BMDMs after 4hr LipidA stimulation.

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Effect of SWI/SNF pertubations on macrophage inflammatory activation [RNA-seq]

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Effect of SWI/SNF pertubations on chromatin accessibility during macrophage inflammatory activation [ATAC-seq]

Project description:Effect of SWI/SNF pertubations on chromatin accessibility during macrophage inflammatory activation [ATAC-seq]

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siRNA Knockdown of SWI/SNF complex proteins in prostate cancer cell lines

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Project description:A systems understanding of nuclear organization and events is critical for determining how cells divide, differentiate and respond to stimuli and for identifying the causes of diseases. Chromatin remodeling complexes such as SWI/SNF have been implicated in a wide variety of cellular processes including gene expression, nuclear organization, centromere function and chromosomal stability, and mutations in SWI/SNF components have been linked to several types of cancer. To better understand the biological processes in which chromatin remodeling proteins participate we globally mapped binding regions for several components of the SWI/SNF complex throughout the human genome using ChIP-Seq. SWI/SNF components were found to lie near regulatory elements integral to transcription (e.g. 5M-bM-^@M-^Y ends, RNA Polymerases II and III and enhancers) as well as regions critical for chromosome organization (e.g. CTCF, lamins and DNA replication origins). To further elucidate the association of SWI/SNF subunits with each other as well as with other nuclear proteins we also analyzed SWI/SNF immunoprecipitated complexes by mass spectrometry. Individual SWI/SNF factors are associated with their own family members as well as with cellular constituents such as nuclear matrix proteins, key transcription factors and centromere components implying a ubiquitous role in gene regulation and nuclear function. We find an overrepresentation of both SWI/SNF-associated regions and proteins in cell cycle and chromosome organization. Taken together the results from our ChIP and immunoprecipitation experiments suggest that SWI/SNF facilitates gene regulation and genome function more broadly and through a greater diversity of interactions than previously appreciated. ChIP-Seq analysis of the SWI/SNF subunits Ini1, Brg1, BAF155 and BAF170 in HeLa S3 cells

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Project description:This project uses crosslinked based mass spectrometry (CXMS) to study the architecture of yeast SWI/SNF complex.

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Composition and Function of Mutant Swi/Snf Complexes.

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