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Special Issue: Chromatin and Epigenetics

Guest Editor

Dr. Vladimir B. Teif
School of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, United Kingdom.


Dr. Andrey Cherstvy
Institute for Physics and Astronomy, University of Potsdam, 14476 Potsdam-Golm, Germany


Manuscript Topics

Recent advances in high-throughput sequencing experiments and their theoretical descriptions have determined fast dynamics of the "chromatin and epigenetics" field, with new concepts appearing and disappearing at high rate. This field includes but is not limited to the study of DNA-protein-RNA interactions, chromatin packing at different scales, regulation of gene expression and protein trafficking in the cell nucleus, binding site search in the crowded chromatin environment and modulation of physical interactions by covalent chemical modifications of the binding partners. The current special issue does not pretend for the full coverage of the field, but it aims to capture its dynamism and provide a snapshot of the most recent concepts and approaches. Eighteen open-access articles comprising this issue provide a delicate balance between current theoretical and experimental biophysical approaches to study chromatin and understand epigenetic regulation, allowing free flow of new ideas and preliminary results.


Instructions for authors
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Please submit your manuscript to online submission system
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Paper Submission

All manuscripts will be peer-reviewed before their acceptance for publication. The deadline for manuscript submission is 22 May 2015

Published Papers(19)

Editorial
Chromatin and epigenetics: current biophysical views
Vladimir B. Teif Andrey G. Cherstvy
2016, Volume 3, Issue 1: 88-98. doi: 10.3934/biophy.2016.1.88
Abstract HTML PDF Cited (6) Viewed (7273)
Research article
Columnar structure of SV40 minichromosome
Edward N Trifonov
2015, Volume 2, Issue 3: 274-283. doi: 10.3934/biophy.2015.3.274
Abstract HTML PDF Cited (3) Viewed (5457)
Review
Studying epigenetic interactions using MicroScale Thermophoresis (MST)
Thomas Schubert Gernot Längst
2015, Volume 2, Issue 3: 370-380. doi: 10.3934/biophy.2015.3.370
Abstract HTML PDF Cited (11) Viewed (9853)
Review
Kinetic proofreading of chromatin remodeling: from gene activation to gene repression and back
Raghvendra P Singh Guillaume Brysbaert Marc F Lensink Fabrizio Cleri Ralf Blossey
2015, Volume 2, Issue 4: 398-411. doi: 10.3934/biophy.2015.4.398
Abstract HTML PDF Cited (3) Viewed (6626)
Review
Cytosine methylation in insects: new routes for the comprehension of insect complexity
Mauro Mandrioli Gian Carlo Manicardi
2015, Volume 2, Issue 4: 412-422. doi: 10.3934/biophy.2015.4.412
Abstract HTML PDF Cited (6) Viewed (6240)
Review
Thermal analysis of ligand-DNA interaction: determination of binding parameters
Ekaterina Bereznyak Natalia Gladkovskaya Evgeniy Dukhopelnykov Anastasiya Gerus Anastasiya Lantushenko Maxim Evstigneev
2015, Volume 2, Issue 4: 423-440. doi: 10.3934/biophy.2015.4.423
Abstract HTML PDF Cited (8) Viewed (8890)
Review
Chromatin dynamics at DNA breaks: what, how and why?
Théo Lebeaupin Hafida Sellou Gyula Timinszky Sébastien Huet
2015, Volume 2, Issue 4: 458-475. doi: 10.3934/biophy.2015.4.458
Abstract HTML PDF Cited (12) Viewed (9234)
Research article
Towards a robust algorithm to determine topological domains from colocalization data
Alexander P. Moscalets Leonid I. Nazarov Mikhail V. Tamm
2015, Volume 2, Issue 4: 503-516. doi: 10.3934/biophy.2015.4.503
Abstract HTML PDF Cited (1) Viewed (5588)
Research article
Chromatin epigenomic domain folding: size matters
Bertrand R. Caré Pierre-Emmanuel Emeriau Ruggero Cortini Jean-Marc Victor
2015, Volume 2, Issue 4: 517-530. doi: 10.3934/biophy.2015.4.517
Abstract HTML PDF Cited (12) Viewed (6960)
Review
Chromatin—a global buffer for eukaryotic gene control
Yuri M. Moshkin
2015, Volume 2, Issue 4: 531-554. doi: 10.3934/biophy.2015.4.531
Abstract HTML PDF Cited (4) Viewed (10644)
Review
Structure and function of histone acetyltransferase MOF
Qiao Yi Chen Max Costa Hong Sun
2015, Volume 2, Issue 4: 555-569. doi: 10.3934/biophy.2015.4.555
Abstract HTML PDF Cited (17) Viewed (8269)
Research article
Pilot RNAi screening using mammalian cell-based system identifies novel putative silencing factors including Kat5/Tip60
Anuroop Venkateswaran Venkatasubramani Katy McLaughlin Giovanny Rodriguez Blanco Vladimir Larionov Alexander Kagansky
2015, Volume 2, Issue 4: 570-584. doi: 10.3934/biophy.2015.4.570
Abstract HTML PDF Cited (3) Viewed (7105)
Review
Into the chromatin world: Role of nuclear architecture in epigenome regulation
Andrea Bianchi Chiara Lanzuolo
2015, Volume 2, Issue 4: 585-612. doi: 10.3934/biophy.2015.4.585
Abstract HTML PDF Cited (8) Viewed (13444)
Research article
Topological diversity of chromatin fibers: Interplay between nucleosome repeat length, DNA linking number and the level of transcription
Davood Norouzi Ataur Katebi Feng Cui Victor B. Zhurkin
2015, Volume 2, Issue 4: 613-629. doi: 10.3934/biophy.2015.4.613
Abstract HTML PDF Cited (20) Viewed (7817)
Research article
Chiral selection in wrapping, crossover, and braiding of DNA mediated by asymmetric bend-writhe elasticity
Tomohiro Yanao Sosuke Sano Kenichi Yoshikawa
2015, Volume 2, Issue 4: 666-694. doi: 10.3934/biophy.2015.4.666
Abstract HTML PDF Cited (1) Viewed (6695)
Review
What is the role of histone H1 heterogeneity? A functional model emerges from a 50 year mystery
Missag Hagop Parseghian
2015, Volume 2, Issue 4: 724-772. doi: 10.3934/biophy.2015.4.724
Abstract HTML PDF Cited (25) Viewed (11866)
Review
Exploring function of conserved non-coding DNA in its chromosomal context
Delores J. Grant Leighcraft A. Shakes Hope M. Wolf Derek C. Norford Pradeep K. Chatterjee
2015, Volume 2, Issue 4: 773-793. doi: 10.3934/biophy.2015.4.773
Abstract HTML PDF Cited (1) Viewed (7892)
Review
The interplay of long non-coding RNAs and MYC in cancer
Michael J. Hamilton Matthew D. Young Silvia Sauer Ernest Martinez
2015, Volume 2, Issue 4: 794-809. doi: 10.3934/biophy.2015.4.794
Abstract HTML PDF Cited (26) Viewed (10120)
Review
On the electrostatics of DNA in chromatin
Klemen Bohinc Leo Lue
2016, Volume 3, Issue 1: 75-87. doi: 10.3934/biophy.2016.1.75
Abstract HTML PDF Cited (1) Viewed (6149)