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A Comparative Study of Various Meta-Heuristic Algorithms for Ab Initio Protein Structure Prediction on 2D Hydrophobic-Polar Model

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Proceedings of Fifth International Conference on Soft Computing for Problem Solving

Part of the book series: Advances in Intelligent Systems and Computing ((AISC,volume 437))

Abstract

Ab initio protein structure prediction (PSP) models tertiary structures of proteins from its sequence. This is one of the most important and challenging problems in bioinformatics. In the last five decades, many algorithmic approaches have been made to solve the PSP problem. However, it remains unsolvable even for proteins of short sequence. In this review, the reported performances of various meta-heuristic algorithms were compared. Two of the algorithmic settings—protein representation and initialization functions were found to have definite positive influence on the running time and quality of structure. The hybrid of local search and genetic algorithm is recognized to be the best based on the performance. This work provides a chronicle brief on evolution of alternate attempts to solve the PSP problem, and subsequently discusses the merits and demerits of various meta-heuristic approaches to solve the PSP problem.

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Acknowledgments

The authors are grateful to the anonymous referees for their constructive comments and suggestions that greatly improved the paper.

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Authors and Affiliations

  1. Department of Computer Science & Engineering, MIT, Manipal University, Manipal, India

    Sandhya P N Dubey & N. Gopalakrishna Kini

  2. Department of Biotechnology, MIT, Manipal University, Manipal, India

    S. Balaji

  3. Department of ECE, MIT, Manipal University, Manipal, India

    M. Sathish Kumar

Authors
  1. Sandhya P N Dubey
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  2. S. Balaji
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  3. N. Gopalakrishna Kini
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  4. M. Sathish Kumar
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Corresponding author

Correspondence to Sandhya P N Dubey .

Editor information

Editors and Affiliations

  1. Dept of Applied Sci & Eng, Indian Instit of Tech Roorkee, Roorkee, India

    Millie Pant

  2. Department of Mathematics, Indian Inst of Tech Roorkee, Roorkee, India

    Kusum Deep

  3. Dept of Mathematics, South Asian University New Delhi, New Delhi, India

    Jagdish Chand Bansal

  4. Department of Mathematics and Comp Sci, Liverpool Hope University, LIVERPOOL, United Kingdom

    Atulya Nagar

  5. Department of Mathematics, National Inst of Tech Silchar, Silchar, Assam, India

    Kedar Nath Das

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Dubey, S.P.N., Balaji, S., Gopalakrishna Kini, N., Sathish Kumar, M. (2016). A Comparative Study of Various Meta-Heuristic Algorithms for Ab Initio Protein Structure Prediction on 2D Hydrophobic-Polar Model. In: Pant, M., Deep, K., Bansal, J., Nagar, A., Das, K. (eds) Proceedings of Fifth International Conference on Soft Computing for Problem Solving. Advances in Intelligent Systems and Computing, vol 437. Springer, Singapore. https://doi.org/10.1007/978-981-10-0451-3_36

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  • DOI: https://doi.org/10.1007/978-981-10-0451-3_36

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  • Print ISBN: 978-981-10-0450-6

  • Online ISBN: 978-981-10-0451-3

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