ZNF143 is involved in CTCF-mediated chromatin interactions by cooperation with cohesin and other partners
Abstract
ZNF143 is a ubiquitously expressed transcription factor conserved in vertebrates and might regulate the expression of numerous genes. But its function in mediating chromatin interactions remains elusive. By integrated analysis of public datasets, we provided evidence that a majority of ZNF143 binding sites (BSs) were involved in CTCF-mediated chromatin interaction networks (CTCF-CINs) by overlapping with cohesin-BSs and CTCF-BSs. We further showed that only a very few CTCF-CINs were associated with ZNF143 alone, whereas those associated with ZNF143 and cohesin simultaneously were highly overlapped with constitutive, conserved CTCF-BSs and enriched at boundaries of chromatin topologically associating domains. These observations implicate that as an important partner of CTCF, ZNF143 helps it establish the conserved chromatin structure by cooperating with cohesin.
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YY1 and ZNF143 are zinc finger TFs with DNA binding domains that have been implicated as looping factors mediating interactions between active regulatory elements.
“YY1 and ZNF143 are both zinc finger TFs with DNA binding domains that have recently been implicated as looping factors mediating interactions between active regulatory elements [295, 362–365].”
From Transcriptional enhancers and their communication with gene promoters (2021) · cites this paper as [364]
ZNF143 binds to promoters globally and is found at the anchors of many lineage-specific enhancer-promoter loops in human and mouse cells.
“Meanwhile, ZNF143 binds to promoters globally [367] and was found at the anchors of many lineage-specific enhancer–promoter loops in human and mouse cells [362–364, 368].”
From Transcriptional enhancers and their communication with gene promoters (2021) · cites this paper as [364]
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Transcriptional enhancers and their communication with gene promoters
Ray-Jones, H., & Spivakov, M. (2021) · Cellular and Molecular Life Sciences · doi:10.1007/s00018-021-03903-w · Cited by 81 · see citing works
ZNF143 is a regulator of chromatin loop
Wen, Z., Huang, Z.-T., Zhang, R., & Peng, C. (2018) · Cell Biology and Toxicology · doi:10.1007/s10565-018-9443-z · Cited by 41 · see citing works
- Authors
- Ye, B.-Y., Shen, W.-L., Wang, D., Li, P., Zhang, Z., Shi, M.-L., Zhang, Y., Zhang, F.-X., & Zhao, Z.-H.
- Affiliations
- Capital Normal University (CN)
- Corresponding author
- Zhang, F.-X.
- Zhao, Z.-H.
- Venue
- Molecular Biology
- Publisher
- Pleiades Publishing Ltd
- Published
- 2016-05
- Volume
- 50
- Issue
- 3
- Pages
- 431-437
- ISSN
- 0026-8933 (ISSN-L)
- 1608-3245
- OpenAlex
- W2469553581
- Cited by
- 26
- References
- 0
- Citations by year
- 2024: 1 · 2023: 1 · 2022: 9 · 2021: 2 · 2020: 4 · 2019: 4 · 2018: 1 · 2017: 3 · 2016: 1
- FWCI
- 1.56
- Type
- journal article
- Language
- en
- Open access
- closed
- Licence
- Locations
- Molecular Biology (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chromatin Remodeling and Cancer
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer-related molecular mechanisms research
- Keywords
- ZNF143, CTCF, cohesin, chromatin interactions, chromatin interaction networks, transcription factor binding sites, topologically associating domains, chromatin structure
- MeSH terms
- CCCTC-Binding Factor, Cohesins, Binding Sites, Chromatin, Chromosomal Proteins, Non-Histone, Humans, Protein Binding, Repressor Proteins, Trans-Activators, Gene Expression, Cell Cycle Proteins, K562 Cells, Protein Interaction Mapping, Databases, Genetic, Chromatin Assembly and Disassembly, Nucleotide Motifs
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