Literature DB >> 27869158

Mapping the 3D genome: Aiming for consilience.

Job Dekker1.   

Abstract

The spatial organization of genomes is studied using microscopy- and chromosome conformation capture (3C)-based methods. The two types of methods produce data that are often consistent, but there are cases where they appear discordant. These cases provide opportunities to derive better models of chromatin folding, which can reconcile the datasets.

Mesh:

Year:  2016        PMID: 27869158     DOI: 10.1038/nrm.2016.151

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  3 in total

1.  Spatial organization of chromatin domains and compartments in single chromosomes.

Authors:  Siyuan Wang; Jun-Han Su; Brian J Beliveau; Bogdan Bintu; Jeffrey R Moffitt; Chao-ting Wu; Xiaowei Zhuang
Journal:  Science       Date:  2016-07-21       Impact factor: 47.728

2.  Spatial genome organization: contrasting views from chromosome conformation capture and fluorescence in situ hybridization.

Authors:  Iain Williamson; Soizik Berlivet; Ragnhild Eskeland; Shelagh Boyle; Robert S Illingworth; Denis Paquette; Josée Dostie; Wendy A Bickmore
Journal:  Genes Dev       Date:  2014-12-15       Impact factor: 11.361

Review 3.  Closing the loop: 3C versus DNA FISH.

Authors:  Luca Giorgetti; Edith Heard
Journal:  Genome Biol       Date:  2016-10-19       Impact factor: 13.583

  3 in total
  29 in total

Review 1.  Epigenetics and the dynamics of chromatin during adenovirus infections.

Authors:  Kelsey L Lynch; Linda R Gooding; Charlie Garnett-Benson; David A Ornelles; Daphne C Avgousti
Journal:  FEBS Lett       Date:  2019-12-15       Impact factor: 4.124

2.  Higher-Order Inter-chromosomal Hubs Shape 3D Genome Organization in the Nucleus.

Authors:  Sofia A Quinodoz; Noah Ollikainen; Barbara Tabak; Ali Palla; Jan Marten Schmidt; Elizabeth Detmar; Mason M Lai; Alexander A Shishkin; Prashant Bhat; Yodai Takei; Vickie Trinh; Erik Aznauryan; Pamela Russell; Christine Cheng; Marko Jovanovic; Amy Chow; Long Cai; Patrick McDonel; Manuel Garber; Mitchell Guttman
Journal:  Cell       Date:  2018-06-07       Impact factor: 41.582

Review 3.  Disentangling chromatin architecture to gain insights into the etiology of brain disorders.

Authors:  Janine M Lamonica; Zhaolan Zhou
Journal:  Curr Opin Genet Dev       Date:  2019-07-16       Impact factor: 5.578

Review 4.  Quantitative 3D structured illumination microscopy of nuclear structures.

Authors:  Felix Kraus; Ezequiel Miron; Justin Demmerle; Tsotne Chitiashvili; Alexei Budco; Quentin Alle; Atsushi Matsuda; Heinrich Leonhardt; Lothar Schermelleh; Yolanda Markaki
Journal:  Nat Protoc       Date:  2017-04-13       Impact factor: 13.491

Review 5.  The Role of Chromatin Structure in Gene Regulation of the Human Malaria Parasite.

Authors:  Gayani Batugedara; Xueqing M Lu; Evelien M Bunnik; Karine G Le Roch
Journal:  Trends Parasitol       Date:  2017-01-05

Review 6.  Chromosome Conformation Capture and Beyond: Toward an Integrative View of Chromosome Structure and Function.

Authors:  Rachel Patton McCord; Noam Kaplan; Luca Giorgetti
Journal:  Mol Cell       Date:  2020-01-27       Impact factor: 17.970

7.  High-Resolution Mapping of Multiway Enhancer-Promoter Interactions Regulating Pathogen Detection.

Authors:  Pranitha Vangala; Rachel Murphy; Sofia A Quinodoz; Kyle Gellatly; Patrick McDonel; Mitchell Guttman; Manuel Garber
Journal:  Mol Cell       Date:  2020-09-28       Impact factor: 17.970

8.  Molecular cartography of mutational landscapes in melanomas.

Authors:  Emily C Beckwitt; Bennett Van Houten
Journal:  EMBO J       Date:  2017-09-20       Impact factor: 11.598

Review 9.  The Three-Dimensional Organization of Mammalian Genomes.

Authors:  Miao Yu; Bing Ren
Journal:  Annu Rev Cell Dev Biol       Date:  2017-08-07       Impact factor: 13.827

10.  Inter-chromosomal Contact Properties in Live-Cell Imaging and in Hi-C.

Authors:  Philipp G Maass; A Rasim Barutcu; Catherine L Weiner; John L Rinn
Journal:  Mol Cell       Date:  2018-03-08       Impact factor: 17.970

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