The 3DGD: a database of genome 3D structure

Bioinformatics
Chao LiYixue Li

Abstract

The studies of chromatin 3D structure help us to understand its formation and function. Techniques combining chromosome conformation capture and next generation sequencing can capture chromatin structure information and has been applied to several different species and cell lines. We built 3DGD (3D Genome Database), a database that currently collected Hi-C data on four species, for easy accessing and visualization of chromatin 3D structure data. With the integration of other omics data such as genome-wide protein-DNA-binding data, this data source would be useful for researchers interested in chromatin structure and its biological functions. The 3DGD v1.1, data browser, downloadable files and documentation are available at: http://3dgd.biosino.org/.

References

Apr 16, 2016·Database : the Journal of Biological Databases and Curation·Xiaoxiao YunZhihua Zhang
Mar 20, 2015·Bioinformatics·Li TengKai Tan
May 18, 2016·BMC Genomics·Marco-Antonio Mendoza-ParraHinrich Gronemeyer
Feb 6, 2017·Genome Biology·Galip Gürkan Yardımcı, William S Noble
Oct 24, 2018·International Journal of Molecular Sciences·Brendan GongolTraci Marin
Nov 21, 2015·Briefings in Bioinformatics·Antonio MoraRagnhild Eskeland

Citations

May 4, 2010·Nature·Zhijun DuanWilliam S Noble
Nov 4, 2010·Molecular Systems Biology·Marco BottaJulien Mozziconacci
Feb 24, 2011·Current Opinion in Genetics & Development·Guohong Li, Danny Reinberg
Jun 21, 2011·Nature Genetics·Lusy HandokoChia-Lin Wei
Jun 2, 2012·Methods : a Companion to Methods in Enzymology·Jon-Matthew BeltonJob Dekker
Sep 1, 2012·BMC Genomics·Axel CournacJulien Mozziconacci
Sep 4, 2012·Nature Methods·Maxim ImakaevLeonid A Mirny
Oct 2, 2012·Bioinformatics·Ming HuJun S Liu

Related Concepts

Genome
Massively-Parallel Sequencing
Genome Database
Chromosomes
Chromatin Location
DNA Helix Destabilizing Proteins
Chromatin
Online Mendelian Inheritance In Man
Chromatin Structure

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