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Gene Promoter Evolution Targets the Center of the Human Protein Interaction Network

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dc.contributor Universitat de Vic. Escola Politècnica Superior
dc.contributor Universitat de Vic. Grup de Recerca en Bioinformàtica i Estadística Mèdica
dc.contributor.author Planas Cuchi, Jordi
dc.contributor.author Serrat i Jurado, Josep Maria
dc.date.accessioned 2012-12-17T10:48:16Z
dc.date.available 2012-12-17T10:48:16Z
dc.date.created 2010
dc.date.issued 2010
dc.identifier.citation Planas J, Serrat JM (2010) Gene Promoter Evolution Targets the Center of the Human Protein Interaction Network. PLoS ONE 5(7): e11476. doi:10.1371/ journal.pone.0011476 ca_ES
dc.identifier.issn 1932-6203
dc.identifier.uri http://hdl.handle.net/10854/1961
dc.description.abstract Assessing the contribution of promoters and coding sequences to gene evolution is an important step toward discovering the major genetic determinants of human evolution. Many specific examples have revealed the evolutionary importance of cis-regulatory regions. However, the relative contribution of regulatory and coding regions to the evolutionary process and whether systemic factors differentially influence their evolution remains unclear. To address these questions, we carried out an analysis at the genome scale to identify signatures of positive selection in human proximal promoters. Next, we examined whether genes with positively selected promoters (Prom+ genes) show systemic differences with respect to a set of genes with positively selected protein-coding regions (Cod+ genes). We found that the number of genes in each set was not significantly different (8.1% and 8.5%, respectively). Furthermore, a functional analysis showed that, in both cases, positive selection affects almost all biological processes and only a few genes of each group are located in enriched categories, indicating that promoters and coding regions are not evolutionarily specialized with respect to gene function. On the other hand, we show that the topology of the human protein network has a different influence on the molecular evolution of proximal promoters and coding regions. Notably, Prom+ genes have an unexpectedly high centrality when compared with a reference distribution (P = 0.008, for Eigenvalue centrality). Moreover, the frequency of Prom+ genes increases from the periphery to the center of the protein network (P = 0.02, for the logistic regression coefficient). This means that gene centrality does not constrain the evolution of proximal promoters, unlike the case with coding regions, and further indicates that the evolution of proximal promoters is more efficient in the center of the protein network than in the periphery. These results show that proximal promoters have had a systemic contribution to human evolution by increasing the participation of central genes in the evolutionary process. ca_ES
dc.format application/pdf
dc.format.extent 10 p. ca_ES
dc.language.iso eng ca_ES
dc.publisher Public Library of Science ca_ES
dc.rights Aquest document està subjecte a aquesta llicència Creative Commons ca_ES
dc.rights.uri http://creativecommons.org/licenses/by-nc-nd/3.0/es/ ca_ES
dc.subject.other Genètica humana ca_ES
dc.title Gene Promoter Evolution Targets the Center of the Human Protein Interaction Network ca_ES
dc.type info:eu-repo/semantics/article ca_ES
dc.identifier.doi http://dx.doi/org/10.1371/ journal.pone.0011476
dc.rights.accesRights info:eu-repo/semantics/openAccess ca_ES
dc.type.version info:eu-repo/updatedVersion ca_ES
dc.indexacio Indexat a SCOPUS
dc.indexacio Indexat a WOS/JCR ca_ES

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