NDLI: Evolutionary approach for designing protein-protein interaction network using artificial bee colony optimization

Content Provider	IEEE Xplore Digital Library
Author	Rakshit, P. Das, P. Chowdhury, A. Konar, A. Janarthanan, R.
Copyright Year	2012
Description	Author affiliation: Dept. of IT, Jaya Eng. Coll., Chennai, India (Janarthanan, R.) \|\| Dept. of ETCE, Inst. of Eng. & Manage., Kolkata, India (Das, P.) \|\| Dept. of ETCE, Jadavpur Univ., Kolkata, India (Rakshit, P.; Chowdhury, A.; Konar, A.)
Abstract	In the new paradigm for studying biological phenomena represented by System Biology, cellular components are not considered in isolation but as forming complex networks of relationships. Protein-Protein Interaction (PPI) networks are among the first objects studied from this new point of view. The paper addresses an interesting approach to protein-protein interaction problem using Artificial Bee Colony (ABC) optimization algorithm. In this work, PPI is formulated as an optimization problem. The binding energy and mismatch in phylogenetic profiles of two bound proteins are used as a scoring function for the solutions. Results are demonstrated for three different networks both numerically and pictorially. Experimental results reveal that the proposed method outperforms Differential Evolution (DE) based PPI network design method considering the intra- and inter-molecular energies of the evolved molecules and the phylogenetic profiles of the proteins in the network.
Sponsorship	IEEE Comput. Soc.
Starting Page	1
Ending Page	8
File Size	3662921
Page Count	8
File Format	PDF
DOI	10.1109/ICCCNT.2012.6396037
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2012-07-26
Publisher Place	India
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Proteins Phylogenetic profile Analytical models Artificial bee colony Protein-protein interaction CHARMM energy Decoding McNemar's test Polymers Servers Optimization Cancer
Content Type	Text
Resource Type	Article

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1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
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3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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