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Protein Function Prediction from Protein Interaction Network Using Bottom-up L2L Apriori Algorithm

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Computational Intelligence, Communications, and Business Analytics (CICBA 2017)

Part of the book series: Communications in Computer and Information Science ((CCIS,volume 776))

Abstract

Detection of unannotated protein functions in a protein interaction network generates a lot of beneficial information in the field of drug discovery of various kinds of diseases. Though most of the various computational methods have succeeded in predicting functions of huge amount of unknown proteins at recent times but the main problem is the simultaneous increase of false positives in most of the predicted results. In this work, a bottom-up predictor of existing Apriori algorithm has been implemented for protein function prediction by exploiting two most important neighborhood properties: closeness centrality and edge clustering coefficient of protein interaction network. The method is also unique in the fact that the functions of the leaf nodes in the interaction network have been back propagated and thus labeled up to the root node (target protein) using a bottom-up level to level approach. An overall precision, recall and F-score of 0.86, 0.65 and 0.74 respectively have been obtained in this work which are found to be better than most of the current state-of-the-art.

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Authors and Affiliations

  1. Department of Computer Science and Engineering, Dr. Sudhir Chandra Sur Degree Engineering College, Dumdum, Kolkata, 700 074, India

    Abhimanyu Prasad & Sovan Saha

  2. Department of Computer Science and Engineering, Netaji Subhash Engineering College, Garia, Kolkata, 700152, India

    Piyali Chatterjee

  3. Department of Computer Science and Engineering, Jadavpur University, Kolkata, 700032, India

    Subhadip Basu & Mita Nasipuri

Authors
  1. Abhimanyu Prasad
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  2. Sovan Saha
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  3. Piyali Chatterjee
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  4. Subhadip Basu
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  5. Mita Nasipuri
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Corresponding author

Correspondence to Sovan Saha .

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Editors and Affiliations

  1. Department of Computer Science and Engineering, University of Kalyani, Kalyani, West Bengal, India

    J. K. Mandal

  2. Department of Computer and System Sciences, Visva Bharati University, Bolpur Santiniketan, West Bengal, India

    Paramartha Dutta

  3. Department of Information Technology, Calcutta Business School, Kolkata, India

    Somnath Mukhopadhyay

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Prasad, A., Saha, S., Chatterjee, P., Basu, S., Nasipuri, M. (2017). Protein Function Prediction from Protein Interaction Network Using Bottom-up L2L Apriori Algorithm. In: Mandal, J., Dutta, P., Mukhopadhyay, S. (eds) Computational Intelligence, Communications, and Business Analytics. CICBA 2017. Communications in Computer and Information Science, vol 776. Springer, Singapore. https://doi.org/10.1007/978-981-10-6430-2_1

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  • DOI: https://doi.org/10.1007/978-981-10-6430-2_1

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  • Print ISBN: 978-981-10-6429-6

  • Online ISBN: 978-981-10-6430-2

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