ArticleScientific reports2016
Chromatin accessibility contributes to simultaneous mutations of cancer genes.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 35 citations in OpenAlex.
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- Prediction of Alzheimer's Disease Based on 3D Genome Selected circRNA.The journal of prevention of Alzheimer's disease · 2024Article
- Associations between DNA methylation and gene regulation depend on chromatin accessibility during transgenerational plasticity.BMC biology · 2023Article
- Three-dimensional genome landscape comprehensively reveals patterns of spatial gene regulation in papillary and anaplastic thyroid cancers: a study using representative cell lines for each cancer type.Cellular & molecular biology letters · 2023Article
- Pan-Cancer Genome-Wide DNA Methylation Analyses Revealed That Hypermethylation Influences 3D Architecture and Gene Expression Dysregulation in HOXA Locus During Carcinogenesis of Cancers.Frontiers in cell and developmental biology · 2021Article
- The Origin of B-cells: Human Fetal B Cell Development and Implications for the Pathogenesis of Childhood Acute Lymphoblastic Leukemia.Frontiers in immunology · 2021Review
- A novel neoantigen discovery approach based on chromatin high order conformation.BMC medical genomics · 2020Article
- Benchmarking of computational error-correction methods for next-generation sequencing data.Genome biology · 2020Article
- Impact of mouse contamination in genomic profiling of patient-derived models and best practice for robust analysis.Genome biology · 2019Article
- One protein to rule them all: The role of CCCTC-binding factor in shaping human genome in health and disease.Seminars in cell & developmental biology · 2019Review
- Modeling the process of human tumorigenesis.Nature communications · 2017Review
Corrections and comments
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Somatic mutations of many cancer genes tend to co-occur (termed co-mutations) in certain patterns during tumor initiation and progression. However, the genetic and epigenetic mechanisms that contribute to the co-mutations of these cancer genes have yet to be explored. Here, we systematically investigated the association between the somatic co-mutations of cancer genes and high-order chromatin conformation. Significantly, somatic point co-mutations in protein-coding genes were closely associated with high-order spatial chromatin folding. We propose that these regions be termed Spatial Co-mutation Hotspots (SCHs) and report their occurrence in different cancer types. The conserved mutational signatures and DNA sequences flanking these point co-mutations, as well as CTCF-binding sites, are also enriched within the SCH regions. The genetic alterations that are harboured in the same SCHs tend to disrupt cancer driver genes involved in multiple signalling pathways. The present work demonstrates that high-order spatial chromatin organisation may contribute to the somatic co-mutations of certain cancer genes during tumor development.
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