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2016 ; 17
(ä): 59
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Predicting the three-dimensional folding of cis-regulatory regions in mammalian
genomes using bioinformatic data and polymer models
#MMPMID27036497
Brackley CA
; Brown JM
; Waithe D
; Babbs C
; Davies J
; Hughes JR
; Buckle VJ
; Marenduzzo D
Genome Biol
2016[Mar]; 17
(ä): 59
PMID27036497
show ga
The three-dimensional (3D) organization of chromosomes can be probed using
methods like Capture-C. However, it is unclear how such population-level data
relate to the organization within a single cell, and the mechanisms leading to
the observed interactions are still largely obscure. We present a polymer
modeling scheme based on the assumption that chromosome architecture is
maintained by protein bridges, which form chromatin loops. To test the model, we
perform FISH experiments and compare with Capture-C data. Starting merely from
the locations of protein binding sites, our model accurately predicts the
experimentally observed chromatin interactions, revealing a population of 3D
conformations.