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Modeling chromosomes: Beyond pretty pictures.

author

Geoffrey Fudenberg

published in: FEBS Letters

date of publication: 2015-09-10

language: English

Cites articles 65

Date

Title

Authors

2016-05-19

Formation of Chromosomal Domains by Loop Extrusion

Geoffrey Fudenberg, Anton Goloborodko, Nezar Abdennur
2015-08-01

Identification of Gene Positioning Factors Using High-Throughput Imaging Mapping

Gianluca Pegoraro, Tom Misteli
2015-08-01

A CTCF Code for 3D Genome Architecture
2015-08-01

Condensin promotes the juxtaposition of DNA flanking its loading site in Bacillus subtilis

Xindan Wang, Tung Bk Le, Laub MT
2015-05-12

Single-molecule super-resolution imaging of chromosomes and in situ haplotype visualization using Oligopaint FISH probes

William M. Shih, Peng Yin, Brian J Beliveau, David Colognori, Caroline Kim-Kiselak, Jeannie T. Lee
2015-05-07

Disruptions of topological chromatin domains cause pathogenic rewiring of gene-enhancer interactions

Hülya Kayserili, Stefan Mundlos, Brigitte Gilbert-Dussardier, Katerina Kraft, Martin Franke, Malte Spielmann, Eva Klopocki, Axel Visel, Darío G. Lupiáñez, Marco Osterwalder, Peter Krawitz, Stefan Haas, Renata Laxova, Denise Horn, John Marius Opitz, Bernd Timmermann
2015-04-27

Topology, structures, and energy landscapes of human chromosomes

Peter Guy Wolynes
2015-08-01

CRISPR Inversion of CTCF Sites Alters Genome Topology and Enhancer/Promoter Function

Adrian Robert Krainer, Ya Guo, David U Gorkin, Inkyung Jung, Tom Maniatis
2015-02-26

Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture

Duncan Odom, Matteo Vietri Rudan, Christina Ernst, Amos Tanay
2015-08-01

Condensin- and Replication-Mediated Bacterial Chromosome Folding and Origin Condensation Revealed by Hi-C and Super-resolution Imaging

Diego I Cattoni, Heath Murray, Romain Koszul, Martial Marbouty, Axel Cournac, Marcelo Nollmann
2015-03-01

Combined collapse by bridging and self-adhesion in a prototypical polymer model inspired by the bacterial nucleoid.

Marco Cosentino Lagomarsino, Vittore F. Scolari
2014-12-11

A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping

Eric Lander, Erez Lieberman Aiden, Suhas S.P. Rao
2014-11-06

The Hitchhiker's guide to Hi-C analysis: practical guidelines

Noam Kaplan
2014-10

Chromatin loops as allosteric modulators of enhancer-promoter interactions

Maxim Imakaev, Geoffrey Fudenberg
2014-10-12

Cohesin-dependent globules and heterochromatin shape 3D genome architecture in S. pombe

Geoffrey Fudenberg, Sameet Mehta, Shiv I. Grewal, Job Dekker
2014-08-14

Effects of supercoiling on enhancer-promoter contacts

Fabrizio Benedetti, Julien Dorier
2014-08-04

Modeling epigenome folding: formation and dynamics of topologically associated chromatin domains

Daniel Jost
2014-06-01

A statistical approach for inferring the 3D structure of the genome

Nelle Varoquaux, Ferhat Ay, Jean-Philippe Vert
2014-05-01

Predictive polymer modeling reveals coupled fluctuations in chromosome conformation and transcription

Rafael Galupa, Elphège Nora, Guido Tiana, Edith Heard
2014-02

Large-scale chromatin organization: the good, the surprising, and the still perplexing
2014-02-11

Reproducibility of 3D chromatin configuration reconstructions
2014-01-28

From a melt of rings to chromosome territories: the role of topological constraints in genome folding

Alexander Grosberg, Kurt Kremer
2014-12-01

Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization

Ragnhild Eskeland, Robert S. Illingworth, Wendy Bickmore
2014-09-21

3D genome reconstruction from chromosomal contacts.

Axel Cournac, Annick Lesne
2014-12-04

Effects of topological constraints on globular polymers

Maxim Imakaev, Serguei K. Nechaev
2013-12-23

Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

Fabrizio Benedetti, Yannis Burnier, Julien Dorier
2013-11-07

Organization of the mitotic chromosome

Maxim Imakaev, Geoffrey Fudenberg, Job Dekker
2013-11-01

3D chromosome modeling with semi-definite programming and Hi-C data

Guoliang Li, W-K Sung
2013-10-24

High-resolution mapping of the spatial organization of a bacterial chromosome

Tung Bk Le, Maxim Imakaev, Laub MT
2013-09-25

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

Tim J Stevens, Eitan Yaffe, Wendy Dean, Ernest D. Laue, Peter Fraser, Amos Tanay, Yaniv Lubling
2013-01-31

Bayesian inference of spatial organizations of chromosomes

Ming Hu, Zhaohui Steve Qin
2013-01-14

Caulobacter chromosome in vivo configuration matches model predictions for a supercoiled polymer in a cell-like confinement

Sebastian Doniach, Kim I Mortensen, Harley McAdams, Lucy Shapiro, Sun-Hae Hong

Article - wd:Q38585877

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