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Simulating topological domains in human chromosomes with a fitting-free model

Abstract:

We discuss a polymer model for the 3D organization of human chromosomes. A chromosome is represented by a string of beads, with each bead being "colored" according to 1D bioinformatic data (e.g., chromatin state, histone modification, GC content). Individual spheres (representing bi- and multi-valent transcription factors) can bind reversibly and selectively to beads with the appropriate color. During molecular dynamics simulations, the factors bind, and the string spontaneously folds into lo...

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Publication status:
Published
Peer review status:
Peer reviewed
Version:
Accepted manuscript

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Publisher copy:
10.1080/19491034.2016.1239684

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Department:
Oxford, MPLS, Plant Sciences
Role:
Author
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Grant:
CoG 648050 (THREEDCELL- PHYSICS)
Publisher:
Taylor and Francis Publisher's website
Journal:
Nucleus Journal website
Volume:
7
Issue:
5
Pages:
453-461
Publication date:
2016-11-14
Acceptance date:
2016-09-19
DOI:
EISSN:
1949-1042
ISSN:
1949-1034
Pubs id:
pubs:659866
URN:
uri:08993eae-901f-4cf8-bccf-be4cf1b39a0c
UUID:
uuid:08993eae-901f-4cf8-bccf-be4cf1b39a0c
Local pid:
pubs:659866
Paper number:
5

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