title: XLink-DB: database and software tools for storing and visualizing protein interaction topology data.
abstract: As large-scale cross-linking data becomes available, new software tools for data processing and visualization are required to replace manual data analysis. XLink-DB serves as a data storage site and visualization tool for cross-linking results. XLink-DB accepts data generated with any cross-linker and stores them in a relational database. Cross-linked sites are automatically mapped onto PDB structures if available, and results are compared to existing protein interaction databases. A protein interaction network is also automatically generated for the entire data set. The XLink-DB server, including examples, and a help page are available for noncommercial use at http://brucelab.gs.washington.edu/crosslinkdbv1/ . The source code can be viewed and downloaded at https://sourceforge.net/projects/crosslinkdb/?source=directory .
authors: Department of Chemistry, University of Washington , Seattle, Washington, United States.
authors: Chunxiang
authors: C
authors: Zheng
authors: Chad R
authors: CR
authors: Weisbrod
authors: Juan D
authors: JD
authors: Chavez
authors: Jimmy K
authors: JK
authors: Eng
authors: Vagisha
authors: V
authors: Sharma
authors: Xia
authors: X
authors: Wu
authors: James E
authors: JE
authors: Bruce
mesh_terms: D030562:Databases, Protein; D029968:Escherichia coli Proteins / Q000737:chemistry / Q000378:metabolism; D020407:Internet; D009010:Monte Carlo Method; D011487:Protein Conformation; D060066:Protein Interaction Maps; D012984:Software; D013388:Succinimides / Q000737:chemistry; D014584:User-Computer Interface
chemical_list: D029968:Escherichia coli Proteins; D013388:Succinimides; C019358:disuccinimidyl suberate