ArticlePLoS genetics2015
A discrete transition zone organizes the topological and regulatory autonomy of the adjacent tfap2c and bmp7 genes.
Article in PLoS genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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33 citing papers in PubMed, 63 citations in OpenAlex.
- Loop extrusion by cohesin plays a role in enhancer-activated gene expression early in differentiation.Nature communications · 2026Article
- Bystander activation across a TAD boundary supports a cohesin-dependent transcription cluster model for enhancer function.Genes & development · 2025Article
- Direction and modality of transcription changes caused by TAD boundary disruption in Slc29a3/Unc5b locus depends on tissue-specific epigenetic context.Epigenetics & chromatin · 2025Article
- Two unrelated distal genes activated by a shared enhancer benefit from localizing inside the same small topological domain.Genes & development · 2025Article
- A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains.Nature communications · 2024Article
- Enhancer-promoter interactions can form independently of genomic distance and be functional across TAD boundaries.Nucleic acids research · 2024Article
- Topologically associating domain boundaries are required for normal genome function.Communications biology · 2023Article
- 3D or Not 3D: Shaping the Genome during Development.Cold Spring Harbor perspectives in biology · 2022Review
- Chromatin Conformation in Development and Disease.Frontiers in cell and developmental biology · 2021Review
- Controlling gene activation by enhancers through a drug-inducible topological insulator.eLife · 2020Article
- A Conserved Noncoding Locus Regulates Random Monoallelic Xist Expression across a Topological Boundary.Molecular cell · 2020Article
- Functional Characterization of a Dual Enhancer/Promoter Regulatory Element Leading HumanFrontiers in genetics · 2020Article
- The Magnitude of IFN-γ Responses Is Fine-Tuned by DNA Architecture and the Non-coding Transcript of Ifng-as1.Molecular cell · 2019Article
- Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression.Nature genetics · 2019Article
- Function and regulation of chromatin insulators in dynamic genome organization.Current opinion in cell biology · 2019Review
- Article
- Control of directionality of chromatin folding for the inter- and intra-domain contacts at the Tfap2c-Bmp7 locus.Epigenetics & chromatin · 2018Article
- Article
- Genetic Dissection of a Supergene ImplicatesGenetics · 2018Article
- Large scale genomic reorganization of topological domains at the HoxD locus.Genome biology · 2017Article
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite the well-documented role of remote enhancers in controlling developmental gene expression, the mechanisms that allocate enhancers to genes are poorly characterized. Here, we investigate the cis-regulatory organization of the locus containing the Tfap2c and Bmp7 genes in vivo, using a series of engineered chromosomal rearrangements. While these genes lie adjacent to one another, we demonstrate that they are independently regulated by distinct sets of enhancers, which in turn define non-overlapping regulatory domains. Chromosome conformation capture experiments reveal a corresponding partition of the locus in two distinct structural entities, demarcated by a discrete transition zone. The impact of engineered chromosomal rearrangements on the topology of the locus and the resultant gene expression changes indicate that this transition zone functionally organizes the structural partition of the locus, thereby defining enhancer-target gene allocation. This partition is, however, not absolute: we show that it allows competing interactions across it that may be non-productive for the competing gene, but modulate expression of the competed one. Altogether, these data highlight the prime role of the topological organization of the genome in long-distance regulation of gene expression.
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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.