Literature DB >> 30796189

Inner workings of gene folding.

Michele Di Pierro1.   

Abstract

Year:  2019        PMID： 30796189      PMCID： PMC6421469          DOI： 10.1073/pnas.1900875116

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


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  14 in total

1.  The Energetics and Physiological Impact of Cohesin Extrusion.

Authors:  Laura Vian; Aleksandra Pękowska; Suhas S P Rao; Kyong-Rim Kieffer-Kwon; Seolkyoung Jung; Laura Baranello; Su-Chen Huang; Laila El Khattabi; Marei Dose; Nathanael Pruett; Adrian L Sanborn; Andres Canela; Yaakov Maman; Anna Oksanen; Wolfgang Resch; Xingwang Li; Byoungkoo Lee; Alexander L Kovalchuk; Zhonghui Tang; Steevenson Nelson; Michele Di Pierro; Ryan R Cheng; Ido Machol; Brian Glenn St Hilaire; Neva C Durand; Muhammad S Shamim; Elena K Stamenova; José N Onuchic; Yijun Ruan; Andre Nussenzweig; David Levens; Erez Lieberman Aiden; Rafael Casellas
Journal:  Cell       Date:  2018-04-26       Impact factor: 41.582

2.  Energy landscape analyses of disordered histone tails reveal special organization of their conformational dynamics.

Authors:  Davit A Potoyan; Garegin A Papoian
Journal:  J Am Chem Soc       Date:  2011-04-25       Impact factor: 15.419

3.  Mesoscale modeling reveals formation of an epigenetically driven HOXC gene hub.

Authors:  Gavin D Bascom; Christopher G Myers; Tamar Schlick
Journal:  Proc Natl Acad Sci U S A       Date:  2019-02-04       Impact factor: 11.205

4.  Transferable model for chromosome architecture.

Authors:  Michele Di Pierro; Bin Zhang; Erez Lieberman Aiden; Peter G Wolynes; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2016-09-29       Impact factor: 11.205

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

Authors:  Suhas S P Rao; Miriam H Huntley; Neva C Durand; Elena K Stamenova; Ivan D Bochkov; James T Robinson; Adrian L Sanborn; Ido Machol; Arina D Omer; Eric S Lander; Erez Lieberman Aiden
Journal:  Cell       Date:  2014-12-11       Impact factor: 41.582

6.  De novo prediction of human chromosome structures: Epigenetic marking patterns encode genome architecture.

Authors:  Michele Di Pierro; Ryan R Cheng; Erez Lieberman Aiden; Peter G Wolynes; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-31       Impact factor: 11.205

7.  Anomalous diffusion, spatial coherence, and viscoelasticity from the energy landscape of human chromosomes.

Authors:  Michele Di Pierro; Davit A Potoyan; Peter G Wolynes; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-09       Impact factor: 11.205

8.  Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling.

Authors:  Guy Nir; Irene Farabella; Cynthia Pérez Estrada; Carl G Ebeling; Brian J Beliveau; Hiroshi M Sasaki; S Dean Lee; Son C Nguyen; Ruth B McCole; Shyamtanu Chattoraj; Jelena Erceg; Jumana AlHaj Abed; Nuno M C Martins; Huy Q Nguyen; Mohammed A Hannan; Sheikh Russell; Neva C Durand; Suhas S P Rao; Jocelyn Y Kishi; Paula Soler-Vila; Michele Di Pierro; José N Onuchic; Steven P Callahan; John M Schreiner; Jeff A Stuckey; Peng Yin; Erez Lieberman Aiden; Marc A Marti-Renom; C-Ting Wu
Journal:  PLoS Genet       Date:  2018-12-26       Impact factor: 5.917

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

Authors:  Daniel Jost; Pascal Carrivain; Giacomo Cavalli; Cédric Vaillant
Journal:  Nucleic Acids Res       Date:  2014-08-04       Impact factor: 16.971

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

Authors:  Takashi Nagano; Yaniv Lubling; Tim J Stevens; Stefan Schoenfelder; Eitan Yaffe; Wendy Dean; Ernest D Laue; Amos Tanay; Peter Fraser
Journal:  Nature       Date:  2013-09-25       Impact factor: 49.962
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  5 in total

1.  Mesoscale Liquid Model of Chromatin Recapitulates Nuclear Order of Eukaryotes.

Authors:  Rabia Laghmach; Michele Di Pierro; Davit A Potoyan
Journal:  Biophys J       Date:  2019-09-17       Impact factor: 4.033

2.  Bridging chromatin structure and function over a range of experimental spatial and temporal scales by molecular modeling.

Authors:  Stephanie Portillo-Ledesma; Tamar Schlick
Journal:  Wiley Interdiscip Rev Comput Mol Sci       Date:  2019-08-06

3.  Mesoscale Modeling of Nucleosome-Binding Antibody PL2-6: Mono- versus Bivalent Chromatin Complexes.

Authors:  Christopher G Myers; Donald E Olins; Ada L Olins; Tamar Schlick
Journal:  Biophys J       Date:  2019-08-22       Impact factor: 4.033

4.  Circuit topology analysis of cellular genome reveals signature motifs, conformational heterogeneity, and scaling.

Authors:  Barbara Scalvini; Helmut Schiessel; Anatoly Golovnev; Alireza Mashaghi
Journal:  iScience       Date:  2022-02-05

5.  Exploring chromosomal structural heterogeneity across multiple cell lines.

Authors:  Ryan R Cheng; Vinicius G Contessoto; Erez Lieberman Aiden; Peter G Wolynes; Michele Di Pierro; Jose N Onuchic
Journal:  Elife       Date:  2020-10-13       Impact factor: 8.140
  5 in total

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