ArticleEpigenetics & chromatin2016
Roles of cofactors and chromatin accessibility in Hox protein target specificity.
Article in Epigenetics & chromatin, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 82 citations in OpenAlex.
- Single-cell Multiome Analysis of Chromatin State and Transcriptome in the Human Basal Ganglia.bioRxiv : the preprint server for biology · 2026Article
- Multimodal Hox5 activity generates motor neuron diversity.Communications biology · 2024Article
- Embryonic spatiotemporal expression pattern of Folded gastrulation suggests roles in multiple morphogenetic events and regulation by AbdA.G3 (Bethesda, Md.) · 2024Article
- Deciphering the emerging landscape of HOX genes in cardiovascular biology, atherosclerosis and beyond (Review).International journal of molecular medicine · 2024Article
- A bioinformatics screen reveals hox and chromatin remodeling factors at the Drosophila histone locus.BMC genomic data · 2023Article
- Hox genes are crucial regulators of periosteal stem cell identity.Development (Cambridge, England) · 2023Article
- A bioinformatics screen reveals Hox and chromatin remodeling factors at thebioRxiv : the preprint server for biology · 2023Article
- The Hox transcription factor Ultrabithorax binds RNA and regulates co-transcriptional splicing through an interplay with RNA polymerase II.Nucleic acids research · 2022Article
- Diversification and Functional Evolution of HOX Proteins.Frontiers in cell and developmental biology · 2022Review
- Cell-type-specific Hox regulatory strategies orchestrate tissue identity.Current biology : CB · 2021Article
- Mechanisms Underlying Hox-Mediated Transcriptional Outcomes.Frontiers in cell and developmental biology · 2021Review
- Roles ofFrontiers in cell and developmental biology · 2021Review
- Differential abilities to engage inaccessible chromatin diversify vertebrate Hox binding patterns.Development (Cambridge, England) · 2020Article
- Chromatin accessibility plays a key role in selective targeting of Hox proteins.Genome biology · 2019Article
- The Hox transcription factor Ubx stabilizes lineage commitment by suppressing cellular plasticity ineLife · 2019Article
- HOXA9 Reprograms the Enhancer Landscape to Promote Leukemogenesis.Cancer cell · 2018Article
- KDM2A/B lysine demethylases and their alternative isoforms in development and disease.Nucleus (Austin, Tex.) · 2018Review
- The Hox proteins Ubx and AbdA collaborate with the transcription pausing factor M1BP to regulate gene transcription.The EMBO journal · 2017Article
- Mechanisms of Specificity for Hox Factor Activity.Journal of developmental biology · 2016Article
- To Be Specific or Not: The Critical Relationship Between Hox And TALE Proteins.Trends in genetics : TIG · 2016Review
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe regulation of specific target genes by transcription factors is central to our understanding of gene network control in developmental and physiological processes yet how target specificity is achieved is still poorly understood. This is well illustrated by the Hox family of transcription factors as their limited in vitro DNA-binding specificity contrasts with their clear in vivo functional specificity.
resultsWe generated genome-wide binding profiles for three Hox proteins, Ubx, Abd-A and Abd-B, following transient expression in Drosophila Kc167 cells, revealing clear target specificity and a striking influence of chromatin accessibility. In the absence of the TALE class homeodomain cofactors Exd and Hth, Ubx and Abd-A bind at a very similar set of target sites in accessible chromatin, whereas Abd-B binds at an additional specific set of targets. Provision of Hox cofactors Exd and Hth considerably modifies the Ubx genome-wide binding profile enabling Ubx to bind at an additional novel set of targets. Both the Abd-B specific targets and the cofactor-dependent Ubx targets are in chromatin that is relatively DNase1 inaccessible prior to the expression of Hox proteins/Hox cofactors.
conclusionsOur experiments demonstrate a strong role for chromatin accessibility in Hox protein binding and suggest that Hox protein competition with nucleosomes has a major role in Hox protein target specificity in vivo.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.