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dc.contributor.authorContreras-Moreira, Brunoes_ES
dc.contributor.authorSebastián Yagüe, Álvaroes_ES
dc.date.accessioned2016-09-02T10:34:24Z-
dc.date.available2016-09-02T10:34:24Z-
dc.date.issued2016-08-
dc.identifier.citationContreras-Moreira B, Sebastián A. FootprintDB: Analysis of plant cis-regulatory elements, transcription factors, and binding interfaces. In: Hehl R (ed.), Plant Synthetic Promoters (Methods in Molecular Biology 1482: 259-277), New York, Springer Science+Business Media. DOI: 10.1007/978-1-4939-6396-6_17 (2016)es_ES
dc.identifier.isbn978-1-4939-6394-2 (Print)-
dc.identifier.issnISBN 978-1-4939-6396-6 (Online)-
dc.identifier.urihttp://hdl.handle.net/10261/136262-
dc.description28 Pags.- 8 Figs. The definitive version is available at: http://link.springer.com/bookseries/7651 and http://link.springer.com/book/10.1007/978-1-4939-6396-6.es_ES
dc.description.abstractFootprintDB is a database and search engine that compiles regulatory sequences from open access libraries of curated DNA cis-elements and motifs, and their associated transcription factors (TFs). It systematically annotates the binding interfaces of the TFs by exploiting protein-DNA complexes deposited in the Protein Data Bank. Each entry in footprintDB is thus a DNA motif linked to the protein sequence of the TF(s) known to recognize it, and in most cases, the set of predicted interface residues involved in specific recognition. This chapter explains step-by-step how to search for DNA motifs and protein sequences in footprintDB and how to focus the search to a particular organism. Two real-world examples are shown where this software was used to analyze transcriptional regulation in plants. Results are described with the aim of guiding users on their interpretation, and special attention is given to the choices users might face when performing similar analyzes.es_ES
dc.description.sponsorshipThis work was funded by grant Euroinvestigación EUI2008-03612 under the framework of the Transnational (Germany, France, Spain) Cooperation within the PLANT-KBBE Initiative.es_ES
dc.language.isoenges_ES
dc.publisherSpringeres_ES
dc.relation.isversionofPostprintes_ES
dc.rightsopenAccessen_EN
dc.subjectbioinformaticses_ES
dc.subjecttranscription factores_ES
dc.subjectDNA bindinges_ES
dc.subjectDNA motifes_ES
dc.subjectPSSMes_ES
dc.subjectprotein domaines_ES
dc.subjectpromoteres_ES
dc.subjectcis-elementes_ES
dc.subjectdatabasees_ES
dc.subjectopen-accesses_ES
dc.titleFootprintDB: Analysis of plant cis-regulatory elements, transcription factors, and binding interfaceses_ES
dc.typecapítulo de libroes_ES
dc.identifier.doi10.1007/978-1-4939-6396-6_17-
dc.description.peerreviewedPeer reviewedes_ES
dc.relation.publisherversionhttp://dx.doi.org/10.1007/978-1-4939-6396-6_17es_ES
dc.embargo.terms2017-08-31es_ES
dc.contributor.funderEuropean Commissiones_ES
dc.contributor.funderPLANT-KBBEes_ES
dc.relation.csices_ES
oprm.item.hasRevisionno ko 0 false*
dc.identifier.funderhttp://dx.doi.org/10.13039/501100000780es_ES
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