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Polymerization of BTB transcription factors regulates chromatin occupancy

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE251688 | GEO | 2024/07/11

REPOSITORIES: GEO

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Polymerization of BTB transcription factors regulates chromatin occupancy [ChIP-Seq]

Project description:The broad-complex, tramtrack and bric-à-brac (BTB) family of transcription factors (TFs) serve as important regulators of hematopoietic development. The BTB domains of these TFs mediate co-repressor recruitment and dimerization, but their propensity to self-assemble into higher-order structures has not been established. Here, we survey 189 human BTB proteins and identify 18 BTB TFs that form punctate nuclear foci. We demonstrate that these foci-forming BTB TFs polymerize into filaments and present the cryo-EM structures of ZBTB5BTB and ZBTB9BTB filaments. Finally, we find that polymerization in BTB TFs enhances chromatin occupancy within regions containing homotypic clusters of TF binding sites. This increased chromatin occupancy in turn leads to the repression of target genes. Taken together, our results reveal a novel mechanism to regulate BTB TFs, and suggest an underappreciated role for polymerization in regulating TF function.

2024-07-11 | GSE251687 | GEO

Polymerization of BTB transcription factors regulates chromatin occupancy [RNA-Seq]

2024-07-11 | GSE251638 | GEO

The BTB transcription factors ZBTB11 and ZFP131 maintain pluripotency by pausing POL II at pro-differentiation genes

Project description:This SuperSeries is composed of the SubSeries listed below.

2022-01-07 | GSE160966 | GEO

Modeling co-occupancy of transcription factors using chromatin features.

Project description:Regulation of gene expression requires both transcription factor (TFs) and epigenetic modifications, and interplays between the two types of factors have been discovered. However study of relationships between chromatin features and TF-TF co-occupancy remains limited. Here, we revealed the relationship by first illustrating distinct profile patterns of chromatin features related to different binding events, including single TF binding and TF-TF co-occupancy of 71 TFs from five human cell lines. We further implemented statistical analyses to demonstrate the relationship by accurately predicting co-occupancy genome-widely using chromatin features including DNase I hypersensitivity, 11 histone modifications (HMs) and GC content. Remarkably, our results showed that the combination of chromatin features enables accurate predictions across the five cells. For individual chromatin features, DNase I enables high and consistent predictions. H3K27ac, H3K4me 2, H3K4me3 and H3K9ac are more reliable predictors than other HMs. Although the combination of 11 HMs achieves accurate predictions, their predictive ability varies considerably when a model obtained from one cell is applied to others, indicating relationship between HMs and TF-TF co-occupancy is cell type dependent. GC content is not a reliable predictor, but the addition of GC content to any other features enhances their predictive ability. Together, our results elucidate a strong relationship between TF-TF co-occupancy and chromatin features.

| S-EPMC4797273 | biostudies-literature

Dynamics of chromatin accessibility and gene regulation by MADS-domain transcription factors in flower development

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2014-02-03 | E-GEOD-46987 | biostudies-arrayexpress

Competition for DNA binding between paralogous transcription factors determines their genomic occupancy and regulatory functions

Project description:This SuperSeries is composed of the SubSeries listed below.

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Histone-fold domain protein NF-Y promotes chromatin accessibility for cell type-specific master transcription factors

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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The RNA N6-methyladenosine regulates chromatin remodeling and transcription

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Snail regulates MyoD binding-site occupancy to direct enhancer switching and differentiation-specific transcription in myogenesis

Project description:This SuperSeries is composed of the SubSeries listed below.

2012-07-05 | GSE24904 | GEO

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