Characterisation of essential proteins in proteins interaction networks

The identification of essential proteins is theoretically and practically important as it is essential to understand the minimal surviving requirements for cellular lives, and it is fundamental of drug development. As conducting experimental studies to identify essential proteins are both time and r...

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Main Authors:	Sakhinah Abu Bakar, Javid Taheri, Albert Y Zomaya
Format:	Article
Language:	English
Published:	Penerbit Universiti Kebangsaan Malaysia 2013
Online Access:	http://journalarticle.ukm.my/6891/ http://journalarticle.ukm.my/6891/ http://journalarticle.ukm.my/6891/1/jqma-9-2-paper2.pdf

id	ukm-6891
recordtype	eprints
spelling	ukm-68912016-12-14T06:42:29Z http://journalarticle.ukm.my/6891/ Characterisation of essential proteins in proteins interaction networks Sakhinah Abu Bakar, Javid Taheri, Albert Y Zomaya, The identification of essential proteins is theoretically and practically important as it is essential to understand the minimal surviving requirements for cellular lives, and it is fundamental of drug development. As conducting experimental studies to identify essential proteins are both time and resource consuming, here we present a computational approach in predicting them based on network topology properties from protein-protein interaction networks of Saccharomyces cerevisiae, Escherichia coli and Drosophila melanogaster. The proposed method, namely EP3NN (Essential Proteins Prediction using Probabilistic Neural Network), employed a machine learning algorithm called Probabilistic Neural Network as a classifier to identify essential proteins of the organism of interest. EP3NN uses degree centrality, closeness centrality, local assortativity and local clustering coefficient of each protein in the network for such predictions. Results show that EP3NN managed to successfully predict essential proteins with an average accuracy of 95% for our studied organisms. Results also show that most of the essential proteins are close to other proteins, have assortativity behaviour and form clusters/sub-graph in the network. Penerbit Universiti Kebangsaan Malaysia 2013-12 Article PeerReviewed application/pdf en http://journalarticle.ukm.my/6891/1/jqma-9-2-paper2.pdf Sakhinah Abu Bakar, and Javid Taheri, and Albert Y Zomaya, (2013) Characterisation of essential proteins in proteins interaction networks. Journal of Quality Measurement and Analysis, 9 (2). pp. 11-26. ISSN 1823-5670 http://www.ukm.my/jqma/index.html
repository_type	Digital Repository
institution_category	Local University
institution	Universiti Kebangasaan Malaysia
building	UKM Institutional Repository
collection	Online Access
language	English
description	The identification of essential proteins is theoretically and practically important as it is essential to understand the minimal surviving requirements for cellular lives, and it is fundamental of drug development. As conducting experimental studies to identify essential proteins are both time and resource consuming, here we present a computational approach in predicting them based on network topology properties from protein-protein interaction networks of Saccharomyces cerevisiae, Escherichia coli and Drosophila melanogaster. The proposed method, namely EP3NN (Essential Proteins Prediction using Probabilistic Neural Network), employed a machine learning algorithm called Probabilistic Neural Network as a classifier to identify essential proteins of the organism of interest. EP3NN uses degree centrality, closeness centrality, local assortativity and local clustering coefficient of each protein in the network for such predictions. Results show that EP3NN managed to successfully predict essential proteins with an average accuracy of 95% for our studied organisms. Results also show that most of the essential proteins are close to other proteins, have assortativity behaviour and form clusters/sub-graph in the network.
format	Article
author	Sakhinah Abu Bakar, Javid Taheri, Albert Y Zomaya,
spellingShingle	Sakhinah Abu Bakar, Javid Taheri, Albert Y Zomaya, Characterisation of essential proteins in proteins interaction networks
author_facet	Sakhinah Abu Bakar, Javid Taheri, Albert Y Zomaya,
author_sort	Sakhinah Abu Bakar,
title	Characterisation of essential proteins in proteins interaction networks
title_short	Characterisation of essential proteins in proteins interaction networks
title_full	Characterisation of essential proteins in proteins interaction networks
title_fullStr	Characterisation of essential proteins in proteins interaction networks
title_full_unstemmed	Characterisation of essential proteins in proteins interaction networks
title_sort	characterisation of essential proteins in proteins interaction networks
publisher	Penerbit Universiti Kebangsaan Malaysia
publishDate	2013
url	http://journalarticle.ukm.my/6891/ http://journalarticle.ukm.my/6891/ http://journalarticle.ukm.my/6891/1/jqma-9-2-paper2.pdf
first_indexed	2023-09-18T19:48:11Z
last_indexed	2023-09-18T19:48:11Z
_version_	1777406041103794176

Characterisation of essential proteins in proteins interaction networks

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