Paper Info
Title
Smpdb 2.0: Big Improvements To The Small Molecule Pathway Database
Abstract
The Small Molecule Pathway Database (SMPDB, http://www.smpdb.ca) is a comprehensive, colorful, fully searchable and highly interactive database for visualizing human metabolic, drug action, drug metabolism, physiological activity and metabolic disease pathways. SMPDB contains >600 pathways with nearly 75% of its pathways not found in any other database. All SMPDB pathway diagrams are extensively hyperlinked and include detailed information on the relevant tissues, organs, organelles, subcellular compartments, protein cofactors, protein locations, metabolite locations, chemical structures and protein quaternary structures. Since its last release in 2010, SMPDB has undergone substantial upgrades and significant expansion. In particular, the total number of pathways in SMPDB has grown by >70%. Additionally, every previously entered pathway has been completely redrawn, standardized, corrected, updated and enhanced with additional molecular or cellular information. Many SMPDB pathways now include transporter proteins as well as much more physiological, tissue, target organ and reaction compartment data. Thanks to the development of a standardized pathway drawing tool (called PathWhiz) all SMPDB pathways are now much more easily drawn and far more rapidly updated. PathWhiz has also allowed all SMPDB pathways to be saved in a BioPAX format. Significant improvements to SMPDB's visualization interface now make the browsing, selection, re-coloring and zooming of pathways far easier and far more intuitive. Because of its utility and breadth of coverage, SMPDB is now integrated into several other databases including HMDB and DrugBank.
Year
DOI
Venue
2014
10.1093/nar/gkt1067
NUCLEIC ACIDS RESEARCH
Field
DocType
Volume
Drug action,Biology,Carrier protein,Small Molecule Pathway Database,Technical drawing tools,Bioinformatics,Computational biology,Genetics,DrugBank,BioPAX : Biological Pathways Exchange
Journal
42
Issue
ISSN
Citations 
D1
0305-1048
21
PageRank 
References 
Authors
0.89
13
20
Name
Order
Citations
PageRank
Timothy Jewison180538.31
Yilu Su2210.89
Fatemeh Miri Disfany3210.89
Yongjie Liang4787.28
Craig Knox51879110.23
Adam Maciejewski636513.95
Jenna Poelzer7210.89
Jessica Huynh8210.89
You Zhou928911.38
David Arndt1057632.45
Yannick Djoumbou1181038.10
Yifeng Liu1244420.65
Lu Deng13210.89
Anchi Guo141788111.76
Beomsoo Han1529012.20
Allison Pon1650825.07
Michael Wilson17210.89
Shahrzad Rafatnia18210.89
Philip Liu1961733.62
David S. Wishart202586179.98