Literature DB >> 34808408

The stochastic nature of genome organization and function.

Varun Sood1, Tom Misteli2.   

Abstract

Genomes have complex three-dimensional structures. High-resolution population-based biochemical studies over the last decade have painted a mostly static picture of the genome characterized by universal organizational features, such as chromatin domains and compartments. Yet, when analyzed at the single cell level, these architectural elements are highly variable. The heterogeneity in genome organization is in line with the inherent stochasticity of transcription that shows high variation between individual cells. We highlight recent findings on single-cell variability in genome organization and describe a framework for how the stochastic nature of chromatin organization may relate to transcription dynamics. Published by Elsevier Ltd.

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Year:  2021        PMID: 34808408      PMCID: PMC9014486          DOI: 10.1016/j.gde.2021.10.004

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN: 0959-437X            Impact factor:   4.665


  71 in total

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3.  Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors.

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Journal:  Cell       Date:  2020-07-30       Impact factor: 41.582

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5.  Targeted Degradation of CTCF Decouples Local Insulation of Chromosome Domains from Genomic Compartmentalization.

Authors:  Elphège P Nora; Anton Goloborodko; Anne-Laure Valton; Johan H Gibcus; Alec Uebersohn; Nezar Abdennur; Job Dekker; Leonid A Mirny; Benoit G Bruneau
Journal:  Cell       Date:  2017-05-18       Impact factor: 41.582

6.  H3K27ac bookmarking promotes rapid post-mitotic activation of the pluripotent stem cell program without impacting 3D chromatin reorganization.

Authors:  Bobbie Pelham-Webb; Alexander Polyzos; Luke Wojenski; Andreas Kloetgen; Jiexi Li; Dafne Campigli Di Giammartino; Theodore Sakellaropoulos; Aristotelis Tsirigos; Leighton Core; Effie Apostolou
Journal:  Mol Cell       Date:  2021-03-16       Impact factor: 17.970

Review 7.  The Stochastic Genome and Its Role in Gene Expression.

Authors:  Christopher H Bohrer; Daniel R Larson
Journal:  Cold Spring Harb Perspect Biol       Date:  2021-10-01       Impact factor: 10.005

8.  3D genomics across the tree of life reveals condensin II as a determinant of architecture type.

Authors:  Claire Hoencamp; Olga Dudchenko; Ahmed M O Elbatsh; Sumitabha Brahmachari; Jonne A Raaijmakers; Tom van Schaik; Ángela Sedeño Cacciatore; Vinícius G Contessoto; Roy G H P van Heesbeen; Bram van den Broek; Aditya N Mhaskar; Hans Teunissen; Brian Glenn St Hilaire; David Weisz; Arina D Omer; Melanie Pham; Zane Colaric; Zhenzhen Yang; Suhas S P Rao; Namita Mitra; Christopher Lui; Weijie Yao; Ruqayya Khan; Leonid L Moroz; Andrea Kohn; Judy St Leger; Alexandria Mena; Karen Holcroft; Maria Cristina Gambetta; Fabian Lim; Emma Farley; Nils Stein; Alexander Haddad; Daniel Chauss; Ayse Sena Mutlu; Meng C Wang; Neil D Young; Evin Hildebrandt; Hans H Cheng; Christopher J Knight; Theresa L U Burnham; Kevin A Hovel; Andrew J Beel; Pierre-Jean Mattei; Roger D Kornberg; Wesley C Warren; Gregory Cary; José Luis Gómez-Skarmeta; Veronica Hinman; Kerstin Lindblad-Toh; Federica Di Palma; Kazuhiro Maeshima; Asha S Multani; Sen Pathak; Liesl Nel-Themaat; Richard R Behringer; Parwinder Kaur; René H Medema; Bas van Steensel; Elzo de Wit; José N Onuchic; Michele Di Pierro; Erez Lieberman Aiden; Benjamin D Rowland
Journal:  Science       Date:  2021-05-28       Impact factor: 63.714

9.  Cis-regulatory chromatin loops arise before TADs and gene activation, and are independent of cell fate during early Drosophila development.

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10.  Dynamics of the 4D genome during in vivo lineage specification and differentiation.

Authors:  A Marieke Oudelaar; Robert A Beagrie; Matthew Gosden; Sara de Ornellas; Emily Georgiades; Jon Kerry; Daniel Hidalgo; Joana Carrelha; Arun Shivalingam; Afaf H El-Sagheer; Jelena M Telenius; Tom Brown; Veronica J Buckle; Merav Socolovsky; Douglas R Higgs; Jim R Hughes
Journal:  Nat Commun       Date:  2020-06-01       Impact factor: 14.919

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  1 in total

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Journal:  Sci Rep       Date:  2022-06-22       Impact factor: 4.996

  1 in total

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