Functional integrative levels in the human interactome recapitulate organ organization.

Interactome networks represent sets of possible physical interactions between proteins. They lack spatio-temporal information by construction. However, the specialized functions of the differentiated cell types which are assembled into tissues or organs depend on the combinatorial arrangements of pr...

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Autores principales:	Ouissem Souiai, Emmanuelle Becker, Carlos Prieto, Alia Benkahla, Javier De las Rivas, Christine Brun
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/f98f583197ba46cdb22ba11f968ea4bc
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spelling	oai:doaj.org-article:f98f583197ba46cdb22ba11f968ea4bc2021-11-18T06:49:54ZFunctional integrative levels in the human interactome recapitulate organ organization.1932-620310.1371/journal.pone.0022051https://doaj.org/article/f98f583197ba46cdb22ba11f968ea4bc2011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21799769/?tool=EBIhttps://doaj.org/toc/1932-6203Interactome networks represent sets of possible physical interactions between proteins. They lack spatio-temporal information by construction. However, the specialized functions of the differentiated cell types which are assembled into tissues or organs depend on the combinatorial arrangements of proteins and their physical interactions. Is tissue-specificity, therefore, encoded within the interactome? In order to address this question, we combined protein-protein interactions, expression data, functional annotations and interactome topology. We first identified a subnetwork formed exclusively of proteins whose interactions were observed in all tested tissues. These are mainly involved in housekeeping functions and are located at the topological center of the interactome. This 'Largest Common Interactome Network' represents a 'functional interactome core'. Interestingly, two types of tissue-specific interactions are distinguished when considering function and network topology: tissue-specific interactions involved in regulatory and developmental functions are central whereas tissue-specific interactions involved in organ physiological functions are peripheral. Overall, the functional organization of the human interactome reflects several integrative levels of functions with housekeeping and regulatory tissue-specific functions at the center and physiological tissue-specific functions at the periphery. This gradient of functions recapitulates the organization of organs, from cells to organs. Given that several gradients have already been identified across interactomes, we propose that gradients may represent a general principle of protein-protein interaction network organization.Ouissem SouiaiEmmanuelle BeckerCarlos PrietoAlia BenkahlaJavier De las RivasChristine BrunPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 7, p e22051 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ouissem Souiai Emmanuelle Becker Carlos Prieto Alia Benkahla Javier De las Rivas Christine Brun Functional integrative levels in the human interactome recapitulate organ organization.
description	Interactome networks represent sets of possible physical interactions between proteins. They lack spatio-temporal information by construction. However, the specialized functions of the differentiated cell types which are assembled into tissues or organs depend on the combinatorial arrangements of proteins and their physical interactions. Is tissue-specificity, therefore, encoded within the interactome? In order to address this question, we combined protein-protein interactions, expression data, functional annotations and interactome topology. We first identified a subnetwork formed exclusively of proteins whose interactions were observed in all tested tissues. These are mainly involved in housekeeping functions and are located at the topological center of the interactome. This 'Largest Common Interactome Network' represents a 'functional interactome core'. Interestingly, two types of tissue-specific interactions are distinguished when considering function and network topology: tissue-specific interactions involved in regulatory and developmental functions are central whereas tissue-specific interactions involved in organ physiological functions are peripheral. Overall, the functional organization of the human interactome reflects several integrative levels of functions with housekeeping and regulatory tissue-specific functions at the center and physiological tissue-specific functions at the periphery. This gradient of functions recapitulates the organization of organs, from cells to organs. Given that several gradients have already been identified across interactomes, we propose that gradients may represent a general principle of protein-protein interaction network organization.
format	article
author	Ouissem Souiai Emmanuelle Becker Carlos Prieto Alia Benkahla Javier De las Rivas Christine Brun
author_facet	Ouissem Souiai Emmanuelle Becker Carlos Prieto Alia Benkahla Javier De las Rivas Christine Brun
author_sort	Ouissem Souiai
title	Functional integrative levels in the human interactome recapitulate organ organization.
title_short	Functional integrative levels in the human interactome recapitulate organ organization.
title_full	Functional integrative levels in the human interactome recapitulate organ organization.
title_fullStr	Functional integrative levels in the human interactome recapitulate organ organization.
title_full_unstemmed	Functional integrative levels in the human interactome recapitulate organ organization.
title_sort	functional integrative levels in the human interactome recapitulate organ organization.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/f98f583197ba46cdb22ba11f968ea4bc
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Functional integrative levels in the human interactome recapitulate organ organization.

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