相关参考文献
注意：仅列出部分参考文献，下载原文获取全部文献信息。Clustering of Drosophila housekeeping promoters facilitates their expression
Marc Corrales et al.
GENOME RESEARCH (2017)
Dynamic chromatin accessibility modeled by Markov process of randomly-moving molecules in the 3D genome
Yinan Wang et al.
NUCLEIC ACIDS RESEARCH (2017)
ChromEMT: Visualizing 3D chromatin structure and compaction in interphase and mitotic cells
Horng D. Ou et al.
SCIENCE (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)
CTCF and cohesin regulate chromatin loop stability with distinct dynamics
Anders S. Hansen et al.
ELIFE (2017)
Cohesin Loss Eliminates All Loop Domains
Suhas S. P. Rao et al.
CELL (2017)
Simulated binding of transcription factors to active and inactive regions folds human chromosomes into loops, rosettes and topological domains
Chris A. Brackley et al.
NUCLEIC ACIDS RESEARCH (2016)
The physics of epigenetics
Ruggero Cortini et al.
REVIEWS OF MODERN PHYSICS (2016)
Formation of Chromosomal Domains by Loop Extrusion
Geoffrey Fudenberg et al.
CELL REPORTS (2016)
A dynamic mode of mitotic bookmarking by transcription factors
Sheila S. Teves et al.
ELIFE (2016)
Polymer physics of chromosome large-scale 3D organisation
Andrea M. Chiariello et al.
SCIENTIFIC REPORTS (2016)
Strong scaling of general-purpose molecular dynamics simulations on GPUs
Jens Glaser et al.
COMPUTER PHYSICS COMMUNICATIONS (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)
Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher
Davide Normanno et al.
NATURE COMMUNICATIONS (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)
Single-molecule tracking in live cells reveals distinct target-search strategies of transcription factors in the nucleus
Ignacio Izeddin et al.
ELIFE (2014)
Transcription-factor occupancy at HOT regions quantitatively predicts RNA polymerase recruitment in five human cell lines
Joseph W. Foley et al.
BMC GENOMICS (2013)
Transcription Factor Binding in Human Cells Occurs in Dense Clusters Formed around Cohesin Anchor Sites
Jian Yan et al.
CELL (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)
Organization of the Mitotic Chromosome
Natalia Naumova et al.
SCIENCE (2013)
Software for Computing and Annotating Genomic Ranges
Michael Lawrence et al.
PLOS COMPUTATIONAL BIOLOGY (2013)
HOT regions function as patterned developmental enhancers and have a distinct cis-regulatory signature
Evgeny Z. Kvon et al.
GENES & DEVELOPMENT (2012)
Sequence and chromatin determinants of cell-type-specific transcription factor binding
Aaron Arvey et al.
GENOME RESEARCH (2012)
Facilitated Diffusion on Mobile DNA: Configurational Traps and Sequence Heterogeneity
C. A. Brackley et al.
PHYSICAL REVIEW LETTERS (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)
Pioneer transcription factors: establishing competence for gene expression
Kenneth S. Zaret et al.
GENES & DEVELOPMENT (2011)
Software News and Updates MDAnalysis: A Toolkit for the Analysis of Molecular Dynamics Simulations
Naveen Michaud-Agrawal et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2011)
FOXA1 is a key determinant of estrogen receptor function and endocrine response
Antoni Hurtado et al.
NATURE GENETICS (2011)
Facilitated Diffusion of Proteins on Chromatin
O. Benichou et al.
PHYSICAL REVIEW LETTERS (2011)
Quantitative Models of the Mechanisms That Control Genome-Wide Patterns of Transcription Factor Binding during Early Drosophila Development
Tommy Kaplan et al.
PLOS GENETICS (2011)
Five-Vertebrate ChIP-seq Reveals the Evolutionary Dynamics of Transcription Factor Binding
Dominic Schmidt et al.
SCIENCE (2010)
CTCF: Master Weaver of the Genome
Jennifer E. Phillips et al.
CELL (2009)
Molecular crowding affects diffusion and binding of nuclear proteins in heterochromatin and reveals the fractal organization of chromatin
Aurelien Bancaud et al.
EMBO JOURNAL (2009)
How a protein searches for its site on DNA: the mechanism of facilitated diffusion
Leonid Mirny et al.
JOURNAL OF PHYSICS A-MATHEMATICAL AND THEORETICAL (2009)
Effects of macromolecular crowding and DNA looping on gene regulation kinetics
Gene-Wei Li et al.
NATURE PHYSICS (2009)
Insights from genomic profiling of transcription factors
Peggy J. Farnham
NATURE REVIEWS GENETICS (2009)
Nonspecific DNA-Protein Interaction: Why Proteins Can Diffuse along DNA
Vincent Dahirel et al.
PHYSICAL REVIEW LETTERS (2009)
Diversity and Complexity in DNA Recognition by Transcription Factors
Gwenael Badis et al.
SCIENCE (2009)
Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome
Erez Lieberman-Aiden et al.
SCIENCE (2009)
Tumor suppressor p53 slides on DNA with low friction and high stability
Anahita Tafvizi et al.
BIOPHYSICAL JOURNAL (2008)
General purpose molecular dynamics simulations fully implemented on graphics processing units
Joshua A. Anderson et al.
JOURNAL OF COMPUTATIONAL PHYSICS (2008)
How DNA coiling enhances target localization by proteins
B. van den Broek et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Hotspots of transcription factor colocalization in the genome of Drosophila melanogaster
Celine Moorman et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)
Breaking barriers to transcription elongation
Abbie Saunders et al.
NATURE REVIEWS MOLECULAR CELL BIOLOGY (2006)
Transcription regulation and animal diversity
M Levine et al.
NATURE (2003)
DNA binding sites: representation and discovery
GD Stormo
BIOINFORMATICS (2000)
分享论文
