Preprint Article Version 1 This version is not peer-reviewed

Simplified Swarm Optimization Based Function Modules Detection in Protein-to-Protein Interaction Networks

Version 1 : Received: 15 February 2017 / Approved: 15 February 2017 / Online: 15 February 2017 (10:17:35 CET)

A peer-reviewed article of this Preprint also exists.

Zheng, X.; Wu, L.; Ye, S.; Chen, R. Simplified Swarm Optimization-Based Function Module Detection in Protein–Protein Interaction Networks. Appl. Sci. 2017, 7, 412. Zheng, X.; Wu, L.; Ye, S.; Chen, R. Simplified Swarm Optimization-Based Function Module Detection in Protein–Protein Interaction Networks. Appl. Sci. 2017, 7, 412.

Journal reference: Appl. Sci. 2017, 7, 412
DOI: 10.3390/app7040412

Abstract

Proteomics research has become one of the most important topics in the fields of life science and natural science. At present, research on protein–protein interaction networks (PPINs) mainly focuses on detecting protein complexes or function modules. However, existing approaches are either ineffective or incomplete. In this paper, we investigate function module detection mechanisms in PPIN, including open databases, existing detection algorithms and recent solutions. After that, we describe the proposed solution based on simplified swarm optimization (SSO) algorithm and gene ontology knowledge. The proposed solution implements SSO algorithm for clustering proteins with similar function, and imports biological gene ontology knowledge for further identifying function complexes and improving detection accuracy. Furthermore, we use four different categories of species dataset for experiment: Fruitfly, Mouse, Scere, and Human. The testing and analysis result show that the proposed solution is feasible, efficient and could achieve a higher accuracy of prediction than existing approaches.

Subject Areas

protein–protein interaction networks; protein function module; simplified swarm optimization

Readers' Comments and Ratings (0)

Leave a public comment
Send a private comment to the author(s)
Rate this article
Views 0
Downloads 0
Comments 0
Metrics 0
Leave a public comment

×
Alerts
Notify me about updates to this article or when a peer-reviewed version is published.