Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Extensive binding of uncharacterized human transcription factors to genomic dark matter

ABSTRACT: Extensive binding of uncharacterized human transcription factors to genomic dark matter

PROVIDER: PRJNA1177443 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Extensive binding of uncharacterized human transcription factors to genomic dark matter [NewChIP_ERP163147]

Project description:Most of the human genome is thought to be non-functional, and includes large segments often referred to as “dark matter” DNA. The genome also encodes hundreds of putative and poorly characterized transcription factors (TFs). We determined genomic binding locations of 166 uncharacterized human TFs in living cells. Nearly half of them associated strongly with known regulatory regions such as promoters and enhancers, often at conserved motif matches and co-localizing with each other. Surprisingly, the other half often associated with genomic dark matter, at largely unique sites, via intrinsic sequence recognition. Dozens of these, which we term “Dark TFs” mainly bind within regions of closed chromatin. Dark TF binding sites are rarely under purifying selection, and are enriched for transposable elements. Many Dark TFs are KZNFs, which contain the repressive KRAB domain, but many are not, and may represent potential pioneer TFs: based on compiled literature information, the Dark TFs exert diverse functions ranging from early development to tumor suppression. Thus, a large fraction of previously uncharacterized human TFs may have unappreciated activities within the dark matter genome.

2024-11-11 | GSE280165 | GEO

Extensive binding of uncharacterized human transcription factors to genomic dark matter [GSE58341 Reanalysis]

2024-11-11 | GSE280247 | GEO

Extensive binding of uncharacterized human transcription factors to genomic dark matter [GSE76494 Reanalysis]

2024-11-11 | GSE280246 | GEO

Extensive binding of uncharacterized human transcription factors to genomic dark matter

Project description:Extensive binding of uncharacterized human transcription factors to genomic dark matter

| PRJEB78913 | ENA

Extensive binding of uncharacterized human transcription factors to genomic dark matter.

Project description:Most of the human genome is thought to be non-functional, and includes large segments often referred to as "dark matter" DNA. The genome also encodes hundreds of putative and poorly characterized transcription factors (TFs). We determined genomic binding locations of 166 uncharacterized human TFs in living cells. Nearly half of them associated strongly with known regulatory regions such as promoters and enhancers, often at conserved motif matches and co-localizing with each other. Surprisingly, the other half often associated with genomic dark matter, at largely unique sites, via intrinsic sequence recognition. Dozens of these, which we term "Dark TFs", mainly bind within regions of closed chromatin. Dark TF binding sites are enriched for transposable elements, and are rarely under purifying selection. Some Dark TFs are KZNFs, which contain the repressive KRAB domain, but many are not: the Dark TFs also include known or potential pioneer TFs. Compiled literature information supports that the Dark TFs exert diverse functions ranging from early development to tumor suppression. Thus, our results sheds light on a large fraction of previously uncharacterized human TFs and their unappreciated activities within the dark matter genome.

| S-EPMC11601254 | biostudies-literature

Extensive binding of uncharacterized human transcription factors to genomic dark matter

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

2024-11-11 | GSE280248 | GEO

Soil microbial dark matter mining

Project description:Soil microbial dark matter mining

| PRJEB63198 | ENA

Exploring the Genomic Dark Matter of Neurodevelopmental Disorders

Project description:Exploring the Genomic Dark Matter of Neurodevelopmental Disorders

| PRJNA844470 | ENA

Exploring the Genomic Dark Matter of Neurodevelopmental Disorders

Project description:Exploring the Genomic Dark Matter of Neurodevelopmental Disorders