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Genome-wide maps of Trim33, Ctcf and H3K27ac binding in embryoid bodies

ABSTRACT: We report high throughput profiling and co-occupancy of Trim33, Ctcf and H3K27ac in differentiating embryoid bodies derived from mouse embryonic stem cells. An average of ~37 million reads were generated for each of the described samples and input sample generating 4,426, 52,446, 30,047 peaks respectively for Trim33, CTCF and H3K27ac. Motif enrichment analyses for Trim33 ChiP-Seq data returned CTCF and BORIS (CTCF analog) motifs as best matches. Of the merged peaks, 723 were shared by Trim33, CTCF as well as H3K27ac. In addition, 1299 peaks were shared by Trim33 and CTCF, 1131 were shared by Trim33 and H3K27ac and 3321 were shared by CTCF and H3K27ac.

ORGANISM(S): Mus musculus

PROVIDER: GSE119874 | GEO | 2019/01/01

REPOSITORIES: GEO

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Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis

Project description:Transposable elements (TEs) have been active in the mammalian genome for hundreds of millions of years and each TE has had a distinct period of transpositional activity, followed by inactivation. Mice carrying reporter transgenes can be used to model transcriptional silencing at TEs. A mutagenesis screen for modifiers of epigenetic gene silencing produced a line with a null mutation in Trim33. Heterozygous mutants displayed increased expression of the reporter transgene. ChIP-seq of Trim33 in testis revealed 9,109 peaks, mostly at promoters, across the mouse genome. Trim33 was enriched at many RLTR10B elements that are among the youngest retrotransposons in the mouse genome. RNA-seq revealed that testis of mice haploinsufficient for Trim33 had altered expression of a small group of genes. The gene with the most significant increase, Nmnat3, was found to be transcribed from an upstream RLTR10B element. We show that Trim33 is involved in repressing RLTR10B elements in mouse testis. Examination of Trim33 binding using ChIP sequencing and the result of Trim33 haploinsufficiency using RNA sequencing, in mouse testis

2015-11-06 | E-GEOD-68617 | biostudies-arrayexpress

Genome-wide maps of Trim33, Ctcf and H3K27ac binding in embryoid bodies

Project description:Genome-wide maps of Trim33, Ctcf and H3K27ac binding in embryoid bodies

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Dynamics of TRIM33 binding in macrophages and effects of TRIM33 deletion on chromatin state during activation of primary macrophages.

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Trim33 binds and silences a class of young endogenous retroviruses in the mouse testis

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Comparative analyses of CTCF and BORIS occupancies uncover two distinct classes of CTCF binding genomic regions

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2015-07-23 | E-GEOD-70764 | biostudies-arrayexpress

Genomewide mapping of Trim33 binding in Th17 cells

Project description:We report the genome-wide binding of Trim33 in Th17 cells. We found that more than 90% of Trim33 binding regions was located in non-conding sequence, and therefore reflect the role of Trim33 as a trancriptional co-factor. Trim33 was found to accumulate on cis-regulatory regions of genes that regulate the function of Th17 cells such as Il17a, Ccr6 and Il10. This study provides a basis for the comprehensive understanding of Trim33-mediated regulation of Th17 cells.

2018-05-08 | GSE114119 | GEO

Dynamics of TRIM33 binding in macrophages and effects of TRIM33 deletion on chromatin state during activation of primary macrophages.

2015-11-23 | GSE43654 | GEO

Smad4 and Trim33 dependend nodal/activin responsive genes in differentiated mouse ESCs

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