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Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on H3K36me3 patterns in the brains of mouse neonates

ABSTRACT: Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on H3K36me3 patterns in the brains of mouse neonates

PROVIDER: PRJNA723812 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR14300087.fastq.gz	Fastqsanger.gz
	SRR14300088.fastq.gz	Fastqsanger.gz
	SRR14300089.fastq.gz	Fastqsanger.gz
	SRR14300090.fastq.gz	Fastqsanger.gz
	SRR14300091.fastq.gz	Fastqsanger.gz

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Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on H3K36me3 patterns in the brains of mouse neonates

Project description:We report that only a limited genes have differential H3K36me3 marks in the brains of heterozygous Setd2SRI/wt mice compared to those of wild type mice at P0.

2021-09-08 | GSE173092 | GEO

Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt)

Project description:Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt)

| PRJNA723806 | ENA

Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on gene expression in the brains of mouse neonates

Project description:Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on gene expression in the brains of mouse neonates

| PRJNA723811 | ENA

Profiling of Histone H3 Trimethylation at Lysine 36 (H3K36me3) in HepG2 cells: SETD2 knockdown and control cells

Project description:SETD2 is the specific methyltransferase of H3K36me3. To obtain SETD2-dependent landscape of H3K36me3 in human genome, we performed ChIP sequencing in SETD2 silenced and control HepG2 cells.

2019-02-21 | GSE110318 | GEO

Setd2-dependent H3K36me3 is required for Acrbp1 and protamine transcriptions and spermiogenesis in mice

Project description:Spermatogenesis is precisely cotrolled by complex gene expression programs and involves epigenetic reprogramming including histone modification and DNA methylation. Setd2 catalyzes the trimethylation of histone H3 Lys36 (H3K36me3) and plays key roles in embryonic stem cell differentiation and somatic cell development; however, its role in male germ cell development remains elusive. Here we demonstrate an essential role of Setd2 for spermiogenesis. We show that targeted knockout of Setd2 in germ cells causes aberrant spermiogenesis with acrosomal malformation before step 8 round spermatid stage, resulting in complete male infertile. Furthermore, we show a complete loss of H3K36me3 and a significant altered gene expression profile, including Acrbp1 and protamines, caused by Setd2 deficiency. Our findings reveal a previously underappreciated role of Setd2-dependent H3K36me3 for spermiogenesis and improved the understanding of epigenetic disorders underlying male infertility.

2018-04-28 | GSE108717 | GEO

Profiling of Histone H3 Trimethylation at Lysine 36 (H3K36me3) in mouse embryonic stem cells: Setd2 knockdown and control cells

Project description:Setd2 is the specific methyltransferase of H3K36me3. To obtain Setd2-dependent landscape of H3K36me3 in mouse genome, we used mouse embryonic stem cells (mESCs) model with doxycycline (Dox)-induced Setd2 knockdown, and performed ChIP sequencing in mESCs with or without Dox treatment.

2019-02-21 | GSE110321 | GEO

Global transcriptome profiling of SETD2 and hnRNP L depleted cells and H3K36me3 profile of WT 293T cells

Project description:We performed RNA-seq of 293T cells post depletion and SETD2 or hnRNP L to compare their global transcriptome profile. We also looked at the distribution of the histone mark H3K36me3 in wild type 293T to correlate it with the observed transcriptome changes upon SETD2 and hnRNP L depletion. We rescued SETD2 knock out 293T cells with SETD2 FL (Full Length), FLΔSRI (FLwoSRI) and FLΔSHI (FLwoSHI) and performed H3K36me3 ChIP-Seq.

2021-01-29 | GSE151296 | GEO

Impact of heterozygous SRI mutation (R2483H) of Setd2 (Setd2SRI/wt) on gene expression in the brains of mouse neonates

Project description:We report that only a limited number of genes are differentially expressed in the brains of heterozygous Setd2SRI/wt mice compared to those of wild type mice at P0.

2021-09-08 | GSE173090 | GEO

SETD2 haploinsufficiency enhances germinal center-associated AICDA somatic hypermutation to drive B-cell lymphomagenesis

Project description:SETD2 is the sole chromatin modifier responsible for H3K36me3, a histone mark linked to splicing, transcription initiation and DNA damage response. Homozygous disruption of SETD2 yields a tumor suppressor effect in various cancers. However, SETD2 mutation is virtually always heterozygous in diffuse large B-cell lymphomas (DLBCL). Here we show that heterozygous SETD2 deficiency results in germinal center (GC) hyperplasia and accelerated lymphomagenesis. SETD2 haploinsufficient GC B-cells exhibit increased competitive fitness and reduced DNA damage checkpoint activity, resulting in decreased apoptosis. SETD2 haploinsufficient GCB and lymphoma cells featured increased off- and on-target AICDA induced somatic hypermutation (SHM), complex structural variants such as rygma, and increased translocations including those activating MYC. DNA damage was selectively increased on the non-template strand and H3K36me3 loss was associated with greater RNA Pol II processivity and mutational burden, suggesting that SETD2-mediated H3K36me3 is required for proper sensing of cytosine deamination during transcription. Hence, SETD2 haploinsufficiency delineates a novel GC B-cell context specific oncogenic pathway involving defective epigenetic surveillance of AICDA mediated somatic hypermutation induced off target effects on transcribed genes.

2022-04-06 | GSE189867 | GEO

Setd2 reprograns lipid metabolism for the resolution of inflammation via H3K36me3 modification

Project description:Purpose: The goal of this study is to identify differential Setd2-mediated H3K36me3 modificaion in the resolution phase of inflammation induced by LPS Methods: We profiled chip-seq with H3K36me3 antibody in bone marrow-derived macrophages stimulated with LPS for 0h, 4h, 16h. Results: We find different H3K36me3 enrichment peaks under LPS stimulation at different time.

2024-11-13 | GSE141470 | GEO

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