Literature DB >> 29990539

Understanding the 3D genome: Emerging impacts on human disease.

Anton Krumm1, Zhijun Duan2.   

Abstract

Recent burst of new technologies that allow for quantitatively delineating chromatin structure has greatly expanded our understanding of how the genome is organized in the three-dimensional (3D) space of the nucleus. It is now clear that the hierarchical organization of the eukaryotic genome critically impacts nuclear activities such as transcription, replication, as well as cellular and developmental events such as cell cycle, cell fate decision and embryonic development. In this review, we discuss new insights into how the structural features of the 3D genome hierarchy are established and maintained, how this hierarchy undergoes dynamic rearrangement during normal development and how its perturbation will lead to human disease, highlighting the accumulating evidence that links the diverse 3D genome architecture components to a multitude of human diseases and the emerging mechanisms by which 3D genome derangement causes disease phenotypes.
Copyright © 2018 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  3D genome organizer; Associated domain (TAD); Chromatin; Chromatin structural protein; Chromosome; Disease; Hi-C; Three-dimensional (3D) genome architecture; Topologically

Mesh:

Year:  2018        PMID: 29990539      PMCID: PMC6329682          DOI: 10.1016/j.semcdb.2018.07.004

Source DB:  PubMed          Journal:  Semin Cell Dev Biol        ISSN: 1084-9521            Impact factor:   7.727


  217 in total

1.  Dynamic Organization of Chromatin Domains Revealed by Super-Resolution Live-Cell Imaging.

Authors:  Tadasu Nozaki; Ryosuke Imai; Mai Tanbo; Ryosuke Nagashima; Sachiko Tamura; Tomomi Tani; Yasumasa Joti; Masaru Tomita; Kayo Hibino; Masato T Kanemaki; Kerstin S Wendt; Yasushi Okada; Takeharu Nagai; Kazuhiro Maeshima
Journal:  Mol Cell       Date:  2017-07-14       Impact factor: 17.970

2.  Xist recruits the X chromosome to the nuclear lamina to enable chromosome-wide silencing.

Authors:  Chun-Kan Chen; Mario Blanco; Constanza Jackson; Erik Aznauryan; Noah Ollikainen; Christine Surka; Amy Chow; Andrea Cerase; Patrick McDonel; Mitchell Guttman
Journal:  Science       Date:  2016-08-04       Impact factor: 47.728

3.  Chromatin organization is a major influence on regional mutation rates in human cancer cells.

Authors:  Benjamin Schuster-Böckler; Ben Lehner
Journal:  Nature       Date:  2012-08-23       Impact factor: 49.962

Review 4.  Biogenesis and function of nuclear bodies.

Authors:  Yuntao S Mao; Bin Zhang; David L Spector
Journal:  Trends Genet       Date:  2011-06-15       Impact factor: 11.639

5.  Preferential associations between co-regulated genes reveal a transcriptional interactome in erythroid cells.

Authors:  Stefan Schoenfelder; Tom Sexton; Lyubomira Chakalova; Nathan F Cope; Alice Horton; Simon Andrews; Sreenivasulu Kurukuti; Jennifer A Mitchell; David Umlauf; Daniela S Dimitrova; Christopher H Eskiw; Yanquan Luo; Chia-Lin Wei; Yijun Ruan; James J Bieker; Peter Fraser
Journal:  Nat Genet       Date:  2009-12-13       Impact factor: 38.330

6.  TERT rearrangements are frequent in neuroblastoma and identify aggressive tumors.

Authors:  Linda J Valentijn; Jan Koster; Danny A Zwijnenburg; Nancy E Hasselt; Peter van Sluis; Richard Volckmann; Max M van Noesel; Rani E George; Godelieve A M Tytgat; Jan J Molenaar; Rogier Versteeg
Journal:  Nat Genet       Date:  2015-11-02       Impact factor: 38.330

7.  Movement of the X chromosome in epilepsy.

Authors:  J Borden; L Manuelidis
Journal:  Science       Date:  1988-12-23       Impact factor: 47.728

Review 8.  An Overview of Genome Organization and How We Got There: from FISH to Hi-C.

Authors:  James Fraser; Iain Williamson; Wendy A Bickmore; Josée Dostie
Journal:  Microbiol Mol Biol Rev       Date:  2015-09       Impact factor: 11.056

Review 9.  On emerging nuclear order.

Authors:  Indika Rajapakse; Mark Groudine
Journal:  J Cell Biol       Date:  2011-03-07       Impact factor: 10.539

10.  Liquid droplet formation by HP1α suggests a role for phase separation in heterochromatin.

Authors:  Adam G Larson; Daniel Elnatan; Madeline M Keenen; Michael J Trnka; Jonathan B Johnston; Alma L Burlingame; David A Agard; Sy Redding; Geeta J Narlikar
Journal:  Nature       Date:  2017-06-21       Impact factor: 49.962

View more
  12 in total

Review 1.  Blank spots on the map: some current questions on nuclear organization and genome architecture.

Authors:  Carmen Adriaens; Leonid A Serebryannyy; Marina Feric; Andria Schibler; Karen J Meaburn; Nard Kubben; Pawel Trzaskoma; Sigal Shachar; Sandra Vidak; Elizabeth H Finn; Varun Sood; Gianluca Pegoraro; Tom Misteli
Journal:  Histochem Cell Biol       Date:  2018-09-20       Impact factor: 4.304

2.  Measuring significant changes in chromatin conformation with ACCOST.

Authors:  Kate B Cook; Borislav H Hristov; Karine G Le Roch; Jean Philippe Vert; William Stafford Noble
Journal:  Nucleic Acids Res       Date:  2020-03-18       Impact factor: 16.971

Review 3.  The stochastic nature of genome organization and function.

Authors:  Varun Sood; Tom Misteli
Journal:  Curr Opin Genet Dev       Date:  2021-11-19       Impact factor: 4.665

Review 4.  Tales from topographic oceans: topologically associated domains and cancer.

Authors:  Moray J Campbell
Journal:  Endocr Relat Cancer       Date:  2019-11       Impact factor: 5.678

5.  Targeted DNase Hi-C.

Authors:  Zhijun Duan
Journal:  Methods Mol Biol       Date:  2021

6.  Dynamics of genome reorganization during human cardiogenesis reveal an RBM20-dependent splicing factory.

Authors:  Alessandro Bertero; Paul A Fields; Vijay Ramani; Giancarlo Bonora; Galip G Yardimci; Hans Reinecke; Lil Pabon; William S Noble; Jay Shendure; Charles E Murry
Journal:  Nat Commun       Date:  2019-04-04       Impact factor: 14.919

7.  Chromatin compartment dynamics in a haploinsufficient model of cardiac laminopathy.

Authors:  Alessandro Bertero; Paul A Fields; Alec S T Smith; Andrea Leonard; Kevin Beussman; Nathan J Sniadecki; Deok-Ho Kim; Hung-Fat Tse; Lil Pabon; Jay Shendure; William S Noble; Charles E Murry
Journal:  J Cell Biol       Date:  2019-08-08       Impact factor: 10.539

8.  RNA Biogenesis Instructs Functional Inter-Chromosomal Genome Architecture.

Authors:  Alessandro Bertero
Journal:  Front Genet       Date:  2021-03-01       Impact factor: 4.599

Review 9.  Three-Dimensional Genome Organization in Breast and Gynecological Cancers: How Chromatin Folding Influences Tumorigenic Transcriptional Programs.

Authors:  Stephanie I Nuñez-Olvera; Jonathan Puente-Rivera; Rosalio Ramos-Payán; Carlos Pérez-Plasencia; Yarely M Salinas-Vera; Lorena Aguilar-Arnal; César López-Camarillo
Journal:  Cells       Date:  2021-12-28       Impact factor: 6.600

Review 10.  The Clock Takes Shape-24 h Dynamics in Genome Topology.

Authors:  Kévin Tartour; Kiran Padmanabhan
Journal:  Front Cell Dev Biol       Date:  2022-01-03
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.