View : 35 Download: 11

hiPathDB: A human-integrated pathway database with facile visualization

Title
hiPathDB: A human-integrated pathway database with facile visualization
Authors
Yu N.Seo J.Rho K.Jang Y.Park J.Kim W.K.Lee S.
Ewha Authors
이상혁김완규
SCOPUS Author ID
이상혁scopus; 김완규scopus
Issue Date
2012
Journal Title
Nucleic Acids Research
ISSN
0305-1048JCR Link
Citation
vol. 40, no. D1, pp. D797 - D802
Indexed
SCI; SCIE; SCOPUS WOS scopus
Abstract
One of the biggest challenges in the study of biological regulatory networks is the systematic organization and integration of complex interactions taking place within various biological pathways. Currently, the information of the biological pathways is dispersed in multiple databases in various formats. hiPathDB is an integrated pathway database that combines the curated human pathway data of NCI-Nature PID, Reactome, BioCarta and KEGG. In total, it includes 1661 pathways consisting of 8976 distinct physical entities. hiPathDB provides two different types of integration. The pathway-level integration, conceptually a simple collection of individual pathways, was achieved by devising an elaborate model that takes distinct features of four databases into account and subsequently reformatting all pathways in accordance with our model. The entity-level integration creates a single unified pathway that encompasses all pathways by merging common components. Even though the detailed molecular-level information such as complex formation or post-translational modifications tends to be lost, such integration makes it possible to investigate signaling network over the entire pathways and allows identification of pathway cross-talks. Another strong merit of hiPathDB is the built-in pathway visualization module that supports explorative studies of complex networks in an interactive fashion. The layout algorithm is optimized for virtually automatic visualization of the pathways. hiPathDB is available at http://hiPathDB.kobic.re.kr. © The Author(s) 2011.
DOI
10.1093/nar/gkr1127
Appears in Collections:
자연과학대학 > 생명과학전공 > Journal papers
Files in This Item:
001.pdf(404.83 kB)Download
Export
RIS (EndNote)
XLS (Excel)
XML


qrcode

Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.

BROWSE