Identifying hubs in protein interaction networks.

<h4>Background</h4>In spite of the scale-free degree distribution that characterizes most protein interaction networks (PINs), it is common to define an ad hoc degree scale that defines "hub" proteins having special topological and functional significance. This raises the conce...

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Autores principales:	Ravishankar R Vallabhajosyula, Deboki Chakravarti, Samina Lutfeali, Animesh Ray, Alpan Raval
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2009
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/07c597b50fe94d699cb56165a04ae6dc
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id	oai:doaj.org-article:07c597b50fe94d699cb56165a04ae6dc
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spelling	oai:doaj.org-article:07c597b50fe94d699cb56165a04ae6dc2021-11-25T06:23:00ZIdentifying hubs in protein interaction networks.1932-620310.1371/journal.pone.0005344https://doaj.org/article/07c597b50fe94d699cb56165a04ae6dc2009-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/19399170/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>In spite of the scale-free degree distribution that characterizes most protein interaction networks (PINs), it is common to define an ad hoc degree scale that defines "hub" proteins having special topological and functional significance. This raises the concern that some conclusions on the functional significance of proteins based on network properties may not be robust.<h4>Methodology</h4>In this paper we present three objective methods to define hub proteins in PINs: one is a purely topological method and two others are based on gene expression and function. By applying these methods to four distinct PINs, we examine the extent of agreement among these methods and implications of these results on network construction.<h4>Conclusions</h4>We find that the methods agree well for networks that contain a balance between error-free and unbiased interactions, indicating that the hub concept is meaningful for such networks.Ravishankar R VallabhajosyulaDeboki ChakravartiSamina LutfealiAnimesh RayAlpan RavalPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 4, Iss 4, p e5344 (2009)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ravishankar R Vallabhajosyula Deboki Chakravarti Samina Lutfeali Animesh Ray Alpan Raval Identifying hubs in protein interaction networks.
description	<h4>Background</h4>In spite of the scale-free degree distribution that characterizes most protein interaction networks (PINs), it is common to define an ad hoc degree scale that defines "hub" proteins having special topological and functional significance. This raises the concern that some conclusions on the functional significance of proteins based on network properties may not be robust.<h4>Methodology</h4>In this paper we present three objective methods to define hub proteins in PINs: one is a purely topological method and two others are based on gene expression and function. By applying these methods to four distinct PINs, we examine the extent of agreement among these methods and implications of these results on network construction.<h4>Conclusions</h4>We find that the methods agree well for networks that contain a balance between error-free and unbiased interactions, indicating that the hub concept is meaningful for such networks.
format	article
author	Ravishankar R Vallabhajosyula Deboki Chakravarti Samina Lutfeali Animesh Ray Alpan Raval
author_facet	Ravishankar R Vallabhajosyula Deboki Chakravarti Samina Lutfeali Animesh Ray Alpan Raval
author_sort	Ravishankar R Vallabhajosyula
title	Identifying hubs in protein interaction networks.
title_short	Identifying hubs in protein interaction networks.
title_full	Identifying hubs in protein interaction networks.
title_fullStr	Identifying hubs in protein interaction networks.
title_full_unstemmed	Identifying hubs in protein interaction networks.
title_sort	identifying hubs in protein interaction networks.
publisher	Public Library of Science (PLoS)
publishDate	2009
url	https://doaj.org/article/07c597b50fe94d699cb56165a04ae6dc
work_keys_str_mv	AT ravishankarrvallabhajosyula identifyinghubsinproteininteractionnetworks AT debokichakravarti identifyinghubsinproteininteractionnetworks AT saminalutfeali identifyinghubsinproteininteractionnetworks AT animeshray identifyinghubsinproteininteractionnetworks AT alpanraval identifyinghubsinproteininteractionnetworks
_version_	1718413784342593536

Identifying hubs in protein interaction networks.

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