Literature DB >> 31558569

Visualising three-dimensional genome organisation in two dimensions.

Elizabeth Ing-Simmons1, Juan M Vaquerizas1.   

Abstract

The three-dimensional organisation of the genome plays a crucial role in developmental gene regulation. In recent years, techniques to investigate this organisation have become more accessible to labs worldwide due to improvements in protocols and decreases in the cost of high-throughput sequencing. However, the resulting datasets are complex and can be challenging to analyse and interpret. Here, we provide a guide to visualisation approaches that can aid the interpretation of such datasets and the communication of biological results.
© 2019. Published by The Company of Biologists Ltd.

Keywords:  Chromatin conformation; Data visualisation; Gene regulation; Genome organisation; Hi-C data

Year:  2019        PMID: 31558569     DOI: 10.1242/dev.177162

Source DB:  PubMed          Journal:  Development        ISSN: 0950-1991            Impact factor:   6.868


  4 in total

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Authors:  Jiankang Wang; Ryuichiro Nakato
Journal:  Brief Bioinform       Date:  2022-01-17       Impact factor: 11.622

2.  SpectralTAD: an R package for defining a hierarchy of topologically associated domains using spectral clustering.

Authors:  Kellen G Cresswell; John C Stansfield; Mikhail G Dozmorov
Journal:  BMC Bioinformatics       Date:  2020-07-20       Impact factor: 3.169

3.  FAN-C: a feature-rich framework for the analysis and visualisation of chromosome conformation capture data.

Authors:  Kai Kruse; Clemens B Hug; Juan M Vaquerizas
Journal:  Genome Biol       Date:  2020-12-17       Impact factor: 13.583

4.  Productive visualization of high-throughput sequencing data using the SeqCode open portable platform.

Authors:  Enrique Blanco; Mar González-Ramírez; Luciano Di Croce
Journal:  Sci Rep       Date:  2021-10-01       Impact factor: 4.379

  4 in total

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