Database Commons a catalog of biological databases

Database Commons - 3DGD

3DGD

Citations: 6

z-index 0.67

Short name 3DGD
Full name 3D Genome Database
Description 3DGD (3D Genome Database), is a database that currently collected Hi-C data on four species, for easy accessing and visualization of chromatin 3D structure data.
URL http://3dgd.biosino.org
Year founded 2013
Last update & version 2013-11-17    v1.1
Availability Free to all users
University/Institution hosted Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences
Address 320 Yue Yang Road, Shanghai 200031, P. R. China
City Shanghai
Province/State
Country/Region China
Contact name Yixue Li
Contact email yxli@sibs.ac.cn
Data type(s)
Major organism(s)
Keyword(s)
  • chromatin 3D structure
  • DNA-protein interaction
  • Hi-c
Publication(s)
  • The 3DGD: a database of genome 3D structure. [PMID: 24526713]

    Chao Li, Xiao Dong, Haiwei Fan, Chuan Wang, Guohui Ding, Yixue Li
    Bioinformatics (Oxford, England) 2014:30(11)
    6 Citations (Google Scholar as of 2016-03-24)

    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/. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

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Tags

DNA Interaction and Network Protein Structure
Drosophila melanogaster Homo sapiens Mus musculus Saccharomyces cerevisiae
chromatin 3D structure DNA-protein interaction Hi-c

Record metadata

  • Created on: 2015-06-28
  • Curated by:
    • Mengwei Li [2016-04-11]
    • Mengwei Li [2016-03-31]
    • Mengwei Li [2016-03-24]
    • Lin Liu [2016-01-13]
    • Mengwei Li [2015-11-21]
    • Lina Ma [2015-06-30]
    • Zhang Zhang [2015-06-29]
    • Lina Ma [2015-06-29]
    • Zhang Zhang [2015-06-28]
Stats