Abstract
Finding all the proteins that potentially interact with a query protein is useful when studying a biological mechanism, but it is much more difficult than finding interactions between a set of given proteins. This is because it involves intensive computation to search the relevant data in databases, and different databases have different accession numbers and names for the same protein. Recently a few servers have been developed for finding interactions between user-specified proteins, but none of these can find all the potentially interacting proteins for a given protein, including the former version of our prediction server, HPID version 1.0. This paper describes a new online prediction system, HPID 2.0 (http://www.hpid.org), for finding partners interacting with a query protein as well as for finding interactions between query proteins. We applied the new system to predicting the interactions between the entire human proteins, and to identifying human proteins interacting with HIV-1 proteins (http://hiv1.hpid.org). We believe that this is the first online server for predicting proteins interacting with a given protein, and that it will be a useful resource for studying protein-protein interactions.
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Han, K., Park, B., Kim, H., Hong, J., Park, J.: HPID: The Human Protein Interaction Database. Bioinformatics 20, 2466–2470 (2004)
Goffard, N., Garcia, V., Iragne, F., Groppi, A., de Daruvar, A.: IPPRED: server for proteins interactions inference. Bioinformatics 19, 903–904 (2003)
Brown, K.R., Jurisica, I.: Online Predicted Human Interaction Database. Bioinformatics 21, 2076–2082 (2005)
Kim, W.K., Bolser, D.M., Park, J.H.: Large-scale Co-Evolution Analysis of Protein Structural Interlogues Using the Global Protein Structural Interactome Map (PSIMAP). Bioinformatics 20, 1138–1150 (2004)
Han, K., Ju, B., Jung, H.: WebInterViewer: Integrated Framework for Visualizing and Analyzing Molecular Interaction Networks. Nucl. Acids Res. 32, W89–W95 (2004)
Ju, B.-H., Han, K.: Complexity Management in Visualizing Protein Interaction Networks. Bioinformatics 19, i177–i179 (2003)
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© 2006 Springer-Verlag Berlin Heidelberg
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Park, B., Han, K. (2006). Web Service for Predicting Interacting Proteins and Application to Human and HIV-1 Proteins. In: Huang, DS., Li, K., Irwin, G.W. (eds) Computational Intelligence and Bioinformatics. ICIC 2006. Lecture Notes in Computer Science(), vol 4115. Springer, Berlin, Heidelberg. https://doi.org/10.1007/11816102_67
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DOI: https://doi.org/10.1007/11816102_67
Publisher Name: Springer, Berlin, Heidelberg
Print ISBN: 978-3-540-37277-6
Online ISBN: 978-3-540-37282-0
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