ArticleGenome biology2018
OCEAN-C: mapping hubs of open chromatin interactions across the genome reveals gene regulatory networks.
Article in Genome biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed, 85 citations in OpenAlex.
- Revealing High-Resolution Open Chromatin-Associated Interactions by NicE-C.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Phase separation of β-catenin assembles active loop hubs in colorectal cancer.Genome biology · 2026Article
- HiChIA-Rep quantifies the similarity between enrichment-based chromatin interactions datasets.bioRxiv : the preprint server for biology · 2026Article
- An integrated multi-omics and network analysis of neutrophil differentiation from initial- to late-stage.Genome biology · 2026Article
- Elucidation of chromatin loops among regulatory regions using Hi-TrAC.Frontiers in epigenetics and epigenomics · 2026Article
- CTCF Mediates the Cis-Regulatory Hubs in Mouse Hearts.International journal of molecular sciences · 2025Article
- Review
- TAC-C uncovers open chromatin interaction in crops and SPL-mediated photosynthesis regulation.Science advances · 2025Article
- Mapping the 3D genome architecture.Computational and structural biotechnology journal · 2025Review
- Footprint-C reveals transcription factor modes in local clusters and long-range chromatin interactions.Nature communications · 2024Article
- Epigenomic and 3D genomic mapping reveals developmental dynamics and subgenomic asymmetry of transcriptional regulatory architecture in allotetraploid cotton.Nature communications · 2024Article
- An Epigenomic fingerprint of human cancers by landscape interrogation of super enhancers at the constituent level.PLoS computational biology · 2024Article
- Spatial chromatin accessibility sequencing resolves high-order spatial interactions of epigenomic markers.eLife · 2024Article
- HiCAR: Analysis of Open Chromatin Associated Long-range Chromatin Interaction Using Low-Input Materials.Current protocols · 2023Article
- The 3D genome and its impacts on human health and disease.Life medicine · 2023Review
- ChIATAC is an efficient strategy for multi-omics mapping of 3D epigenomes from low-cell inputs.Nature communications · 2023Article
- 3D genome organization and epigenetic regulation in autoimmune diseases.Frontiers in immunology · 2023Review
- When 3D genome technology meets viral infection, including SARS-CoV-2.Journal of medical virology · 2022Review
- Functional genomic assays to annotate enhancer-promoter interactions genome wide.Human molecular genetics · 2022Review
- Histone H3K4me3 breadth in hypoxia reveals endometrial core functions and stress adaptation linked to endometriosis.iScience · 2022Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
We develop a method called open chromatin enrichment and network Hi-C (OCEAN-C) for antibody-independent mapping of global open chromatin interactions. By integrating FAIRE-seq and Hi-C, OCEAN-C detects open chromatin interactions enriched by active cis-regulatory elements. We identify more than 10,000 hubs of open chromatin interactions (HOCIs) in human cells, which are mainly active promoters and enhancers bound by many DNA-binding proteins and form interaction networks crucial for gene transcription. In addition to identifying large-scale topological structures, including topologically associated domains and A/B compartments, OCEAN-C can detect HOCI-mediated chromatin interactions that are strongly associated with gene expression, super-enhancers, and broad H3K4me3 domains.
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Registered trials
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.