Abstract
Protein-protein complexes that dissociate and associate readily,often depending on the physiological condition or environment,play an important role in many biological processes.The impact of the features responsible for protein complex formation is not uniform. In this paper we have tried to rank the features required for stable protein-protein complex formation.We have employed Artificial Bee Colony with Temporal Difference Q learning algorithm to assign weights to the various atomic structure features. Experiments with data provide evidence that such an approach leads to improved clustering performance.
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Gavin, A.C., et al.: Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature 415(6868), 141–147 (2002)
Gavin, A.C., Bosche, M., Krause, R., Grandi, P., Marzioch, M., Bauer, A., Schultz, J., Rick, J.M., Michon, A.M., Cruciat, C.M., et al.: Functional organization of the yeast proteome by systematic analysis of proteincomplexes. Nature 415, 141–147 (2002)
Janin, J., Chothia, C.: The structure of protein-protein recognition sites. J. Biol. Chem. 265, 16027–16030 (1990)
Lichtarge, O., Sowa, M.E.: Evolutionary predictions of binding surfaces and interactions. Curr. Opin. Struct. Biol. 12, 21–27 (2002)
Rakshit, P., Konar, A., Das, S., Nagar, A.K.: ABC-TDQL: an adap-tive memetic algorithm. In: 2013 IEEE Symposium Series on Computational Intelligence (accepted, to be published 2013)
Bhattacharjee, P., Rakshit, P., Goswami, I., Konar, A., Nagar, A.K.: Multi-robot path-planning using artificial bee colony optimization algorithm. In: NaBIC 2011, pp. 219–224 (2011)
Lo Conte, L., Chothia, C., Janin, J.: The Atomic Structure of Protein-Protein Recognition Sites. J. Mol. Biol. 285, 2177–2198 (1999)
Chou, C.H., Su, M.C., Lai, E.: A new cluster validity measure and its application to image compression. Pattern Anal. Appl. 7(2), 205–220 (2004)
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Chowdhury, A., Rakshit, P., Konar, A., Janarthanan, R. (2013). An Evolutionary Approach for Analysing the Effect of Interaction Site Structural Features on Protein- Protein Complex Formation. In: Maji, P., Ghosh, A., Murty, M.N., Ghosh, K., Pal, S.K. (eds) Pattern Recognition and Machine Intelligence. PReMI 2013. Lecture Notes in Computer Science, vol 8251. Springer, Berlin, Heidelberg. https://doi.org/10.1007/978-3-642-45062-4_92
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DOI: https://doi.org/10.1007/978-3-642-45062-4_92
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