ArticleNature communications2021
Large organized chromatin lysine domains help distinguish primitive from differentiated cell populations.
Article in Nature communications, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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Who cites it
12 citing papers in PubMed.
- Simulating cell-free chromatin using preclinical cancer models for liquid biopsy applications.iScience · 2025Article
- Critical roles of IKAROS and HDAC1 in regulation of heterochromatin and tumor suppression in T-cell acute lymphoblastic leukemia.Leukemia · 2025Article
- Comprehensive analysis of H3K27me3 LOCKs under different DNA methylation contexts reveal epigenetic redistribution in tumorigenesis.Epigenetics & chromatin · 2025Article
- Evolution and function of chromatin domains across the tree of life.Nature structural & molecular biology · 2024Review
- In vivo CRISPR screens identify a dual function of MEN1 in regulating tumor-microenvironment interactions.Nature genetics · 2024Article
- TSCRE: a comprehensive database for tumor-specificNAR cancer · 2024Article
- Transposable Elements Are Co-opted as Oncogenic Regulatory Elements by Lineage-Specific Transcription Factors in Prostate Cancer.Cancer discovery · 2023Article
- Recruitment of TRIM33 to cell-context specific PML nuclear bodies regulates nodal signaling in mESCs.The EMBO journal · 2023Article
- New insights into inflammatory memory of epidermal stem cells.Frontiers in immunology · 2023Review
- 3D genome organization and epigenetic regulation in autoimmune diseases.Frontiers in immunology · 2023Review
- Large-Scale Chromatin Rearrangements in Cancer.Cancers · 2022Review
- H3K36 trimethylation-mediated biological functions in cancer.Clinical epigenetics · 2021Review
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Authors and funding
3 authors.
Funding
Abstract
The human genome is partitioned into a collection of genomic features, inclusive of genes, transposable elements, lamina interacting regions, early replicating control elements and cis-regulatory elements, such as promoters, enhancers, and anchors of chromatin interactions. Uneven distribution of these features within chromosomes gives rise to clusters, such as topologically associating domains (TADs), lamina-associated domains, clusters of cis-regulatory elements or large organized chromatin lysine (K) domains (LOCKs). Here we show that LOCKs from diverse histone modifications discriminate primitive from differentiated cell types. Active LOCKs (H3K4me1, H3K4me3 and H3K27ac) cover a higher fraction of the genome in primitive compared to differentiated cell types while repressive LOCKs (H3K9me3, H3K27me3 and H3K36me3) do not. Active LOCKs in differentiated cells lie proximal to highly expressed genes while active LOCKs in primitive cells tend to be bivalent. Genes proximal to bivalent LOCKs are minimally expressed in primitive cells. Furthermore, bivalent LOCKs populate TAD boundaries and are preferentially bound by regulators of chromatin interactions, including CTCF, RAD21 and ZNF143. Together, our results argue that LOCKs discriminate primitive from differentiated cell populations.
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