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Positional bias of general and tissue-specific regulatory motifs in mouse gene promoters

Mostra el registre parcial de l'element Bellora Pereyra, Nicolás Farré, Domènec Albà Soler, Mar
dc.contributor.other Universitat Pompeu Fabra 2012-02-09T09:45:28Z 2012-02-09T09:45:28Z 2007
dc.identifier.citation Bellora N, Farré D, Albà M M. Positional bias of general and tissue-specific regulatory motifs in mouse gene promoters. BMC Genomics. 2007; 8: 459. DOI 10.1186/1471-2164-8-459
dc.identifier.issn 1471-2164
dc.description.abstract Background: The arrangement of regulatory motifs in gene promoters, or promoter/narchitecture, is the result of mutation and selection processes that have operated over many/nmillions of years. In mammals, tissue-specific transcriptional regulation is related to the presence of/nspecific protein-interacting DNA motifs in gene promoters. However, little is known about the/nrelative location and spacing of these motifs. To fill this gap, we have performed a systematic search/nfor motifs that show significant bias at specific promoter locations in a large collection of/nhousekeeping and tissue-specific genes./nResults: We observe that promoters driving housekeeping gene expression are enriched in/nparticular motifs with strong positional bias, such as YY1, which are of little relevance in promoters/ndriving tissue-specific expression. We also identify a large number of motifs that show positional/nbias in genes expressed in a highly tissue-specific manner. They include well-known tissue-specific/nmotifs, such as HNF1 and HNF4 motifs in liver, kidney and small intestine, or RFX motifs in testis,/nas well as many potentially novel regulatory motifs. Based on this analysis, we provide predictions/nfor 559 tissue-specific motifs in mouse gene promoters./nConclusion: The study shows that motif positional bias is an important feature of mammalian/nproximal promoters and that it affects both general and tissue-specific motifs. Motif positional/nconstraints define very distinct promoter architectures depending on breadth of expression and/ntype of tissue.
dc.description.sponsorship We received financial support from Fundación/nBanco Bilbao Vizcaya Argentaria (FBBVA), Plan Nacional de I+D Ministerio/nde Educación y Ciencia (BFU2006-07120), Instituto Nacional de Bioinformática/n(INB), European Commission Infobiomed NoE and, Fundació/nICREA.
dc.language.iso eng
dc.publisher BioMed Central
dc.rights © 2007 Bellora et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.subject.other Genètica
dc.subject.other Àcids nucleics
dc.title Positional bias of general and tissue-specific regulatory motifs in mouse gene promoters
dc.type info:eu-repo/semantics/article
dc.subject.keyword Promoter regions
dc.subject.keyword Mice
dc.subject.keyword DNA
dc.subject.keyword Gene expression
dc.relation.projectID info:eu-repo/grantAgreement/ES/2PN/BFU2006-07120
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

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