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Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains

Abstract:

Biophysicists are modeling conformations of interphase chromosomes, often basing the strengths of interactions between segments distant on the genetic map on contact frequencies determined experimentally. Here, instead, we develop a fitting-free, minimal model: bivalent or multivalent red and green 'transcription factors' bind to cognate sites in strings of beads ('chromatin') to form molecular bridges stabilizing loops. In the absence of additional explicit forces, molecular dynamic simulati...

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Publication status:
Published
Peer review status:
Peer reviewed
Version:
Publisher's version

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Publisher copy:
10.1093/nar/gkw135

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Department:
Oxford, MPLS, Plant Sciences
Role:
Author
More by this author
Department:
Oxford, MSD, Pathology Dunn School
Role:
Author
European Research Council More from this funder
Publisher:
Oxford University Press Publisher's website
Journal:
Nucleic Acids Research Journal website
Volume:
44
Issue:
8
Pages:
3503–3512
Publication date:
2016-04-08
Acceptance date:
2016-02-24
DOI:
ISSN:
1362-4962 and 0305-1048
Pubs id:
pubs:612565
URN:
uri:34937109-c1ac-42ae-85d2-d5a1cd221b65
UUID:
uuid:34937109-c1ac-42ae-85d2-d5a1cd221b65
Local pid:
pubs:612565
Paper number:
8
Language:
English
Keywords:

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