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The interactions between polyanions (PAs) and polyanion binding proteins (PABPs) have been found to play significant roles in many essential biological processes including intracellular organization, transport and protein folding. Furthermore, many neurodegenerative disease related proteins are PABPs. Thus, a better understanding of PA/PABP interactions may not only enhance our understandings of biological systems but also provide new clues to these deadly diseases. DB-PABP is an attempt to document the publicly available experimentally determined PABPs. The purpose of the database is to provide life scientists who are interested in PA/PABP interactions with a comprehensive data repository, as well as computer scientists with a publicly available dataset to perform knowledge discovery and datamining studies. The database is manually curated. It uses protein annotations from NCBI protein database and literature information is retrieved from PubMed. Whenever applicable, links to NCBI protein database and PubMed are provided so users may access additional information available in these public databases. The web interface is written in Java Server Pages (JSP) and the backend is a MySQL community server, an open source relational database. The schema of the database is available here. We use a few Perl scripts to retrieve information directly from public databases. We are frequently updating the database. We invite users to tell us about their experience with the database, to suggest improvements, and especially to contribute new references and data. Our intention is to make DB-PABP a community database so other people can contribute and use the data. New! To make data submission less laborious, we developed a simple but efficient data entry routine. A data submission demo is available. No registration is required and the data in the demo session won't be entered into the database. Please register if you want to contribute data to the DB-PABP. A paper describing the DB-PABP has been published online. It will be part of Nucleic Acids Research 2008 Database Issue. You may access the paper here. |
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Last update: Jan 15, 2008.
Currently (Wed Aug 20 11:56:15 CDT 2008), the DB-PABP has 512 proteins
involved in 706 PA/PABP interactions
retrieved from 205 literature references.
Developed and maintained by Applied Bioinformatics Laboratory and Pharmaceutical Chemistry Department at the University of Kansas. This database has been partially supported by NIH grant number P20 RR016475 |
| Construction crew : Jianwen Fang, Yinghua Dong, Nazila Salamat-Miller, Russell Middaugh. |
| Copyright ©2007 |