Studying the complex expression dependences between sets of coexpressed genes
Huerta Casado, Mario (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
Casanova, Oriol (Universitat Autònoma de Barcelona)
Barchino, Roberto (Universitat Autònoma de Barcelona)
Flores, José (Universitat Autònoma de Barcelona)
Querol Murillo, Enrique (Universitat Autònoma de Barcelona. Institut de Biotecnologia i de Biomedicina "Vicent Villar Palasí")
Cedano Rodríguez, Juan Antonio (Universidad de la República Regional Norte-Salto. Laboratorio de Inmunología)

Date:	2014
Abstract:	Organisms simplify the orchestration of gene expression by coregulating genes whose products function together in the cell. The use of clustering methods to obtain sets of coexpressed genes from expression arrays is very common; nevertheless there are no appropriate tools to studge the expression networks among these sets of coexpressed genes. The aim of the developed tools is to allow studying the complex expression dependences that exist between sets of coexpressed genes. For this purpose, we start detecting the nonlinear expression relationships between pairs of genes, plus the coexpressed genes. Next, we form networks among sets of coexpressed genes that maintain nonlinear expression dependences between all of them. The expression relationship between the sets of coexpressed genes is defined by the expression relationship between the skeletons of these sets, where this skeleton represents the coexpressed genes with a well-defined nonlinear expression relationship with the skeleton of the other sets. As a result, we can study the nonlinear expression relationships between a target gene and other sets of coexpressed genes, or start the study from the skeleton of the sets, to study the complex relationships of activation and deactivation between the sets of coexpressed genes that carry out the different cellular processes present in the expression experiments.
Grants:	Ministerio de Economía y Competitividad BIO2013-48704-R Ministerio de Ciencia e Innovación BFU2010-22209-C02-01
Rights:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Language:	Anglès
Document:	Article ; recerca ; Versió publicada
Subject:	Algorithms ; Cell Line, Tumor ; Cluster Analysis ; Databases, Genetic ; Gene Expression ; Gene Expression Profiling ; Gene Regulatory Networks ; Humans
Published in:	BioMed Research International, Vol. 2014 (2014) , art. 940821, ISSN 2314-6141

DOI: 10.1155/2014/940821
PMID: 25147825

10 p, 1.9 MB

The record appears in these collections:
Research literature > UAB research groups literature > Research Centres and Groups (research output) > Health sciences and biosciences > Institut de Biotecnologia i de Biomedicina (IBB)
Articles > Research articles
Articles > Published articles