ArticleGenome biology2021
Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers.
Article in Genome biology, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Multivariate stochastic modeling for transcriptional dynamics with cell-specific latent time using SDEvelo.Nature communications · 2024Article
- Transcription factor expression is the main determinant of variability in gene co-activity.Molecular systems biology · 2023Article
- Mapping nucleosome and chromatin architectures: A survey of computational methods.Computational and structural biotechnology journal · 2022Review
- Systematic assessment of gene co-regulation within chromatin domains determines differentially active domains across human cancers.Genome biology · 2021Article
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Authors and funding
5 authors.
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Abstract
backgroundSpatial interactions and insulation of chromatin regions are associated with transcriptional regulation. Domains of frequent chromatin contacts are proposed as functional units, favoring and delimiting gene regulatory interactions. However, contrasting evidence supports the association between chromatin domains and transcription.
resultHere, we assess gene co-regulation in chromatin domains across multiple human cancers, which exhibit great transcriptional heterogeneity. Across all datasets, gene co-regulation is observed only within a small yet significant number of chromatin domains. We design an algorithmic approach to identify differentially active domains (DADo) between two conditions and show that these provide complementary information to differentially expressed genes. Domains comprising co-regulated genes are enriched in the less active B sub-compartments and for genes with similar function. Notably, differential activation of chromatin domains is not associated with major changes of domain boundaries, but rather with changes of sub-compartments and intra-domain contacts.
conclusionOverall, gene co-regulation is observed only in a minority of chromatin domains, whose systematic identification will help unravel the relationship between chromatin structure and transcription.
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