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| Binding Interface Database Wiki
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An overflow of information on the characterization of protein-protein interactions at the amino-acid level is continuing to develop with the goal of better understanding protein interfaces. For this reason it is necessary to acquire a protein-protein interaction database in which an enormous number of interactions can be easily accessed.The Binding Interface Database (BID) is structured to organize vast amounts of protein interaction information into tabular form, graphical contact maps, and descriptive functional profiles. Detailed protein descriptions, interaction descriptions, bond formation, and the strength of each amino acid's contribution to binding were systematically obtained by mining the primary literature containing alanine scanning and site-directed mutations. A reference for the database as well as more detailed can be found in our publication: Fischer, et al., Bioinformatics 2003. There are currently more than 467 interacting protein pairs with over 7000 hot spots documented. More than 1000 authors are cited. Systems that have been searched and entered include: Calmodulin (CAM) interacting proteins, Mitogen activated protein kinase (MAPK) signaling proteins, Wnt pathway, BMP/TGF pathway, Jak/STAT, Chaperones and chaperonins, Antigen/Antibody interactions, Cell Adhesion and Junction molecules, Growth Factors, Blood coagulation pathway, Apoptosis pathway, tumor suppressors and various other proteins. By extracting and centralizing information on protein-protein interactions from the primary literature, the BID provides the molecular level descriptions of experimental data in a readily searchable and accessible format. In this format, more relevance can be discovered from this data through relationships and correlations. We have develop some preliminary associations in the "browse by" box on the left. If you would like to support the BID, please see below to participate in joining the BID wiki community. Also, general comments/letters of support are also greatly appreciated and can be sent to Jerry Tsai. |
| How to Become a Contributor
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| Joining the BID community is very simple. At the moment, to protect the database from fraudulent entries and spam by internet bots, a username and password must be requested. Simply contact Jerry Tsai of the Tsai Lab at University of the Pacific. A username and password will be assigned to you as soon as possible (the password may then be changed). It is suggested that users read the Help Files before editing the wikiBID. Joining is free and highly encouraged. |
| For Student Readers:
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| The BID offers a unique and rewarding research project for students to contribute to the organization of scientific data into a computationally accessible format. The project involves reading and extracting pertinent information from articles describing experimental studies on protein-protein interactions. A tutorial has been developed to introduce and help student readers in performing this work, which we are currently in the process of adding to the Help Files. Currently, Student Reader Training is available. As a student reader, your contributions will directly benefit the scientific community. Many students have contributed to the BID. Their efforts not only increased the BID's holdings but also resulted in a publication. To learn more about students' experiences on this project, see this listing of student provided comments and evaluations. The number of research positions are limited and usually fill up quickly at the beginning of the semester. If you are a Pacific student interested in research credit, please contact Jerry Tsai. |
