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Protein interaction inference using particle swarm optimization algorithm

Iqbal, Musaddar and Freitas, Alex A. and Johnson, Colin G. (2008) Protein interaction inference using particle swarm optimization algorithm. In: Marchiori, Elena and Moore, Jason H., eds. Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics 6th European Conference. Lecture Notes in Computer Science . Springer, Berlin, Germany, pp. 61-70. ISBN 978-3-540-78756-3. E-ISBN 978-3-540-78757-0. (doi:10.1007/978-3-540-78757-0_6) (The full text of this publication is not currently available from this repository. You may be able to access a copy if URLs are provided)

The full text of this publication is not currently available from this repository. You may be able to access a copy if URLs are provided. (Contact us about this Publication)
Official URL
http://dx.doi.org/10.1007/978-3-540-78757-0_6

Abstract

Many processes in the cell involve interaction among the proteins and determination of the networks of such interactions is of immense importance towards the complete understanding of cellular functions. As the experimental techniques for this purpose are expensive and potentially erroneous, there are many computational methods being put forward for prediction of protein-protein interactions. These methods use different genomic features for indirect inference of protein- protein interactions. As the interaction among two proteins is facilitated by domains, there are many methods being put forward for inference of such interactions using the specificity of assignment of domains to proteins. We present here an heuristic optimization method, particle swarm optimization, which predicts protein-protein interaction by using the domain assignments information. Results are compared with another known method which predicts domain interactions by casting the problem of interactions inference as a maximum satisfiability (MAX-SAT) problem.

Item Type: Book section
DOI/Identification number: 10.1007/978-3-540-78757-0_6
Uncontrolled keywords: Protein Pair, Domain Pair, Binary Particle Swarm Optimization, Domain Assignment, Particle Swarm Optimization Parameter
Subjects: Q Science > QA Mathematics (inc Computing science) > QA 75 Electronic computers. Computer science
Divisions: Faculties > Sciences > School of Computing
Depositing User: Jane Griffiths
Date Deposited: 21 Apr 2009 13:14 UTC
Last Modified: 01 Aug 2019 10:32 UTC
Resource URI: https://kar.kent.ac.uk/id/eprint/15710 (The current URI for this page, for reference purposes)
Johnson, Colin G.: https://orcid.org/0000-0002-9236-6581
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