ArticleScientific reports2018
The formation of chromatin domains involves a primary step based on the 3-D structure of DNA.
Article in Scientific reports, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed, 12 citations in OpenAlex.
- The emerging sequence grammar of 3D genome organisation.Human genetics · 2025Review
- Elevated microRNA-187 causes cardiac endothelial dysplasia to promote congenital heart disease through inhibition of NIPBL.The Journal of clinical investigation · 2024Article
- Compositional Structure of the Genome: A Review.Biology · 2023Review
- Mechanical Pressure Driving Proteoglycan Expression in Mammographic Density: a Self-perpetuating Cycle?Journal of mammary gland biology and neoplasia · 2021Review
- The "Genomic Code": DNA Pervasively Moulds Chromatin Structures Leaving no Room for "Junk".Life (Basel, Switzerland) · 2021Review
- A DNA Sequence Based Polymer Model for Chromatin Folding.International journal of molecular sciences · 2021Article
- The Genome-Wide Impact ofInternational journal of molecular sciences · 2020Article
- IsoXpressor: A Tool to Assess Transcriptional Activity within Isochores.Genome biology and evolution · 2020Article
- DNA sequence-dependent chromatin architecture and nuclear hubs formation.Scientific reports · 2019Article
- Enigmatic Ladies of the Rings: How Cohesin Dysfunction Affects Myeloid Neoplasms Insurgence.Frontiers in cell and developmental biology · 2019Article
- The short-sequence design of DNA and its involvement in the 3-D structure of the genome.Scientific reports · 2018Article
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1 author at 1 institution in 1 country.
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No grant is acknowledged in the PubMed record.
Abstract
The general model presented here for the formation of chromatin domains, LADs and TADs, is primarily based on the 3-D structures of the corresponding DNA sequences, the GC-poor and GC-rich isochores. Indeed, the low-heterogeneity GC-poor isochores locally are intrinsically stiff and curved because of the presence of interspersed oligo-Adenines. In contrast, the high-heterogeneity GC-rich isochores are in the shape of peaks characterized by increasing levels of GC and of interspersed oligo-Guanines. In LADs, oligo-Adenines induce local nucleosome depletions leading to structures that are well suited for the attachment to (and embedding in) the lamina. In TADs, the gradients of GC and of oligo-Guanines are responsible for a decreasing nucleosome density, decreasing supercoiling and increasing accessibility. This "moulding step" shapes the "primary TADs" into loops that lack self-interactions, being CTCF/cohesin-free structures. The cohesin complex then binds to the tips of "primary TADs" and slides down the loops, thanks to Nipbl, an essential factor for loading cohesin and for stimulating its ATPase activity and its translocation. This "extruding step" leads to closer contacts and to self-interactions in the loops and stops at the CTCF binding sites located at the base of the loops that are thus closed and insulated.
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