Publications

2011

Huerta-Cepas, J, Dopazo J, Huynen MA., Gabaldón T.  2011.  Evidence for short-time divergence and long-time conservation of tissue-specific expression after gene duplication.. Briefings in bioinformatics. Abstract
Pubmed
Vellozo, AF., Véron AS., Baa-Puyoulet P, Huerta-Cepas J, Cottret L, Febvay G, Calevro F, Rahbé Y, Douglas AE., Gabaldón T et al..  2011.  CycADS: an annotation database system to ease the development and update of BioCyc databases.. Database (Oxford). 2011:bar008. Abstract
Pubmed
Sánchez, R, Serra F, Tárraga J, Medina I, Carbonell J, Pulido L, de María A, Capella-Gutiérrez S, Huerta-Cepas J, Gabaldón T et al..  2011.  Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing.. Nucleic Acids Res.. 39 Suppl 2:W470–W474. Abstract
Pubmed
Huerta-Cepas, J, Gabaldón T.  2011.  Assigning duplication events to relative temporal scales in genome-wide studies.. Bioinformatics. 27:38–45. Abstract
application/pdf iconHuerta-cepas_Gabaldon_Bioinformatics_2010.pdf
 Pubmed
application/pdf iconHuerta-cepas_Gabaldon_Bioinformatics_2010.pdf
Huerta-Cepas, J, Capella-Gutiérrez S, Pryszcz LP., Denisov I, Kormes D, Marcet-Houben M, Gabaldón T.  2011.  PhylomeDB v3.0: an expanding repository of genome-wide collections of trees, alignments and phylogeny-based orthology and paralogy predictions.. Nucleic Acids Res.. 39:D556–D560. Abstract
Pubmed
Pryszcz, LP., Huerta-Cepas J, Gabaldón T.  2011.  MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score.. Nucleic Acids Res.. 39:e32. Abstract
Pubmed

2010

Huerta-Cepas, J, Marcet-Houben M, Pignatelli M, Moya A, Gabaldón T.  2010.  The pea aphid phylome: a complete catalogue of evolutionary histories and arthropod orthology and paralogy relationships for Acyrthosiphon pisum genes.. Insect Mol. Biol.. 19 Suppl 2:13–21. Abstract
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 Pubmed
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Peña, A, Teeling H, Huerta-Cepas J, Santos F, Yarza P, Brito-Echeverría J, Lucio M, Schmitt-Kopplin P, Meseguer I, Schenowitz C et al..  2010.  Fine-scale evolution: genomic, phenotypic and ecological differentiation in two coexisting Salinibacter ruber strains.. The ISME journal. Abstract
Pubmed
Huerta-Cepas, J, Dopazo J, Gabaldón T.  2010.  ETE: a python Environment for Tree Exploration.. BMC bioinformatics. 11:24. Abstract
application/pdf iconHuerta_cepas_et_al_2010_ETE.pdf
 Pubmed
application/pdf iconHuerta_cepas_et_al_2010_ETE.pdf

2008

Huerta-Cepas, J, Bueno A, Dopazo J, Gabaldón T.  2008.  PhylomeDB: a database for genome-wide collections of gene phylogenies.. Nucleic Acids Res.. 36:D491–D496. Abstract
Pubmed