Exploring chromosomal structural heterogeneity across multiple cell lines

Simple item page
dc.citation.articleNumbere60312en_US
dc.citation.journalTitleeLifeen_US
dc.citation.volumeNumber9en_US
dc.contributor.authorCheng, Ryan R.en_US
dc.contributor.authorContessoto, Vinícius G.en_US
dc.contributor.authorAiden, Erez Liebermanen_US
dc.contributor.authorWolynes, Peter G.en_US
dc.contributor.authorDi Pierro, Micheleen_US
dc.contributor.authorOnuchic, José Nelsonen_US
dc.contributor.orgCenter for Theoretical Biological Physicsen_US
dc.date.accessioned2020-11-17T19:44:48Zen_US
dc.date.available2020-11-17T19:44:48Zen_US
dc.date.issued2020en_US
dc.description.abstractUsing computer simulations, we generate cell-specific 3D chromosomal structures and compare them to recently published chromatin structures obtained through microscopy. We demonstrate using machine learning and polymer physics simulations that epigenetic information can be used to predict the structural ensembles of multiple human cell lines. Theory predicts that chromosome structures are fluid and can only be described by an ensemble, which is consistent with the observation that chromosomes exhibit no unique fold. Nevertheless, our analysis of both structures from simulation and microscopy reveals that short segments of chromatin make two-state transitions between closed conformations and open dumbbell conformations. Finally, we study the conformational changes associated with the switching of genomic compartments observed in human cell lines. The formation of genomic compartments resembles hydrophobic collapse in protein folding, with the aggregation of denser and predominantly inactive chromatin driving the positioning of active chromatin toward the surface of individual chromosomal territories.en_US
dc.identifier.citationCheng, Ryan R., Contessoto, Vinícius G., Aiden, Erez Lieberman, et al.. "Exploring chromosomal structural heterogeneity across multiple cell lines." <i>eLife,</i> 9, (2020) eLife: https://doi.org/10.7554/eLife.60312.en_US
dc.identifier.doihttps://doi.org/10.7554/eLife.60312en_US
dc.identifier.urihttps://hdl.handle.net/1911/109569en_US
dc.language.isoengen_US
dc.publishereLifeen_US
dc.rightsThis article is distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use and redistribution provided that the original author and source are credited.en_US
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/en_US
dc.titleExploring chromosomal structural heterogeneity across multiple cell linesen_US
dc.typeJournal articleen_US
dc.type.dcmiTexten_US
dc.type.publicationpublisher versionen_US
Files
Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
elife-60312-v2.pdf
Size:
4.11 MB
Format:
Adobe Portable Document Format
Description:
Download
Collections
Faculty Publications
BioSciences Publications
Chemistry Publications
Physics and Astronomy Publications