Related references
Note: Only part of the references are listed.Computational methods for analyzing and modeling genome structure and organization
Dejun Lin et al.
WILEY INTERDISCIPLINARY REVIEWS-SYSTEMS BIOLOGY AND MEDICINE (2019)
Extensive Heterogeneity and Intrinsic Variation in Spatial Genome Organization
Elizabeth H. Finn et al.
CELL (2019)
Microscopy-Based Chromosome Conformation Capture Enables Simultaneous Visualization of Genome Organization and Transcription in Intact Organisms
Andres M. Cardozo Gizzi et al.
MOLECULAR CELL (2019)
Pol II phosphorylation regulates a switch between transcriptional and splicing condensates
Yang Eric Guo et al.
NATURE (2019)
Molecular basis and biological function of variability in spatial genome organization
Elizabeth H. Finn et al.
SCIENCE (2019)
Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus
Sofia A. Quinodoz et al.
CELL (2018)
Polymer physics predicts the effects of structural variants on chromatin architecture
Simona Bianco et al.
NATURE GENETICS (2018)
Structural variation in the 3D genome
Malte Spielmann et al.
NATURE REVIEWS GENETICS (2018)
Imaging dynamic and selective low-complexity domain interactions that control gene transcription
Shasha Chong et al.
SCIENCE (2018)
Coactivator condensation at super-enhancers links phase separation and gene control
Benjamin R. Sabari et al.
SCIENCE (2018)
Mediator and RNA polymerase II clusters associate in transcription-dependent condensates
Won-Ki Cho et al.
SCIENCE (2018)
Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains
Ann Boija et al.
CELL (2018)
Polymer Simulations of Heteromorphic Chromatin Predict the 3D Folding of Complex Genomic Loci
Adam Buckle et al.
MOLECULAR CELL (2018)
Super-resolution chromatin tracing reveals domains and cooperative interactions in single cells
Bogdan Bintu et al.
SCIENCE (2018)
Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling
Guy Nir et al.
PLOS GENETICS (2018)
Phase separation drives heterochromatin domain formation
Amy R. Strom et al.
NATURE (2017)
Two independent modes of chromatin organization revealed by cohesin removal
Wibke Schwarzer et al.
NATURE (2017)
Complex multi-enhancer contacts captured by genome architecture mapping
Robert A. Beagrie et al.
NATURE (2017)
Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin
Adam G. Larson et al.
NATURE (2017)
Single-nucleus Hi-C reveals unique chromatin reorganization at oocyte-to-zygote transition
Ilya M. Flyamer et al.
NATURE (2017)
3D structures of individual mammalian genomes studied by single-cell Hi-C
Tim J. Stevens et al.
NATURE (2017)
Cell-cycle dynamics of chromosomal organization at single-cell resolution
Takashi Nagano et al.
NATURE (2017)
Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells
Mariano Barbieri et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2017)
Nonequilibrium Chromosome Looping via Molecular Slip Links
C. A. Brackley et al.
PHYSICAL REVIEW LETTERS (2017)
Liquid phase condensation in cell physiology and disease
Yongdae Shin et al.
SCIENCE (2017)
Single-cell absolute contact probability detection reveals chromosomes are organized by multiple low-frequency yet specific interactions
Diego I. Cattoni et al.
NATURE COMMUNICATIONS (2017)
Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells
Mariano Barbieri et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2017)
Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors
Francois Serra et al.
PLOS COMPUTATIONAL BIOLOGY (2017)
Cohesin Loss Eliminates All Loop Domains
Suhas S. P. Rao et al.
CELL (2017)
Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization
Elphege P. Nora et al.
CELL (2017)
A Phase Separation Model for Transcriptional Control
Denes Hnisz et al.
CELL (2017)
The 3D Genome as Moderator of Chromosomal Communication
Job Dekker et al.
CELL (2016)
Chromatin Domains: The Unit of Chromosome Organization
Jesse R. Dixon et al.
MOLECULAR CELL (2016)
Super-resolution imaging reveals distinct chromatin folding for different epigenetic states
Alistair N. Boettiger et al.
NATURE (2016)
Transferable model for chromosome architecture
Michele Di Pierro et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
Population-based 3D genome structure analysis reveals driving forces in spatial genome organization
Harianto Tjong et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2016)
Formation of Chromosomal Domains by Loop Extrusion
Geoffrey Fudenberg et al.
CELL REPORTS (2016)
Polymer physics of chromosome large-scale 3D organisation
Andrea M. Chiariello et al.
SCIENTIFIC REPORTS (2016)
Hierarchical folding and reorganization of chromosomes are linked to transcriptional changesin cellular differentiation
James Fraser et al.
MOLECULAR SYSTEMS BIOLOGY (2015)
Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes
Adrian L. Sanborn et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Suhas S. P. Rao et al.
CELL (2014)
Modeling epigenome folding: formation and dynamics of topologically associated chromatin domains
Daniel Jost et al.
NUCLEIC ACIDS RESEARCH (2014)
Retrieving the intracellular topology from multi-scale protein mobility mapping in living cells
Michael Baum et al.
NATURE COMMUNICATIONS (2014)
Genome Architecture: Domain Organization of Interphase Chromosomes
Wendy A. Bickmore et al.
CELL (2013)
A fast algorithm for matrix balancing
Philip A. Knight et al.
IMA JOURNAL OF NUMERICAL ANALYSIS (2013)
Single-cell Hi-C reveals cell-to-cell variability in chromosome structure
Takashi Nagano et al.
NATURE (2013)
Nonspecific bridging-induced attraction drives clustering of DNA-binding proteins and genome organization
Chris A. Brackley et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
An integrated encyclopedia of DNA elements in the human genome
Ian Dunham et al.
NATURE (2012)
Topological domains in mammalian genomes identified by analysis of chromatin interactions
Jesse R. Dixon et al.
NATURE (2012)
Spatial partitioning of the regulatory landscape of the X-inactivation centre
Elphege P. Nora et al.
NATURE (2012)
Complexity of chromatin folding is captured by the strings and binders switch model
Mariano Barbieri et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)
Diffusion-Driven Looping Provides a Consistent Framework for Chromatin Organization
Manfred Bohn et al.
PLOS ONE (2010)
Thermodynamic Pathways to Genome Spatial Organization in the Cell Nucleus
Mario Nicodemi et al.
BIOPHYSICAL JOURNAL (2009)
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Erez Lieberman-Aiden et al.
SCIENCE (2009)
Structure and Dynamics of Interphase Chromosomes
Angelo Rosa et al.
PLOS COMPUTATIONAL BIOLOGY (2008)