Pere Puigbò

Summary

Affiliation: Rovira i Virgili University
Country: Spain

Publications

  1. ncbi HEG-DB: a database of predicted highly expressed genes in prokaryotic complete genomes under translational selection
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Faculty of Chemistry, Rovira i Virgili University URV, C Marcel li Domingo, s n Campus Sescelades, 43007 Tarragona, Spain
    Nucleic Acids Res 36:D524-7. 2008
  2. ncbi TOPD/FMTS: a new software to compare phylogenetic trees
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University, Tarragona, Spain
    Bioinformatics 23:1556-8. 2007
  3. ncbi E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI)
    Pere Puigbò
    Evolutionary Genomics Group, Department of Biochemistry and Biotechnology, Rovira i Virgili University URV, Campus Sescelades, c Marcelli Domingo s n, 43007 Tarragona, Spain
    BMC Bioinformatics 9:65. 2008
  4. ncbi OPTIMIZER: a web server for optimizing the codon usage of DNA sequences
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Faculty of Chemistry, Rovira i Virgili University URV, Tarragona, Spain
    Nucleic Acids Res 35:W126-31. 2007
  5. ncbi CAIcal: a combined set of tools to assess codon usage adaptation
    Pere Puigbò
    Department of Biochemistry and Biotechnology, Rovira i Virgili University URV, Campus Sescelades, c Marcelli Domingo s n, 43007 Tarragona, Spain
    Biol Direct 3:38. 2008
  6. ncbi Gaining and losing the thermophilic adaptation in prokaryotes
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University URV, 43007 Tarragona, Spain
    Trends Genet 24:10-4. 2008
  7. ncbi Towards reconstructing a metabolic tree of life
    Marina Marcet-Houben
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University, Campus Sescelades, C Marcel li Domingo s n, 43007 Tarragona, Spain
    Bioinformation 2:135-44. 2007

Detail Information

Publications7

  1. ncbi HEG-DB: a database of predicted highly expressed genes in prokaryotic complete genomes under translational selection
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Faculty of Chemistry, Rovira i Virgili University URV, C Marcel li Domingo, s n Campus Sescelades, 43007 Tarragona, Spain
    Nucleic Acids Res 36:D524-7. 2008
    ..The HEG-DB is freely available at http://genomes.urv.cat/HEG-DB...
  2. ncbi TOPD/FMTS: a new software to compare phylogenetic trees
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University, Tarragona, Spain
    Bioinformatics 23:1556-8. 2007
    ..AVAILABILITY: The Perl source code of TOPD/FMTS is available at http://genomes.urv.es/topd...
  3. ncbi E-CAI: a novel server to estimate an expected value of Codon Adaptation Index (eCAI)
    Pere Puigbò
    Evolutionary Genomics Group, Department of Biochemistry and Biotechnology, Rovira i Virgili University URV, Campus Sescelades, c Marcelli Domingo s n, 43007 Tarragona, Spain
    BMC Bioinformatics 9:65. 2008
    ..Though several freely available programs calculate the CAI for a given DNA sequence, none of them corrects for compositional biases or provides confidence intervals for CAI values...
  4. ncbi OPTIMIZER: a web server for optimizing the codon usage of DNA sequences
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Faculty of Chemistry, Rovira i Virgili University URV, Tarragona, Spain
    Nucleic Acids Res 35:W126-31. 2007
    ..OPTIMIZER is accessible free of charge at http://genomes.urv.es/OPTIMIZER...
  5. ncbi CAIcal: a combined set of tools to assess codon usage adaptation
    Pere Puigbò
    Department of Biochemistry and Biotechnology, Rovira i Virgili University URV, Campus Sescelades, c Marcelli Domingo s n, 43007 Tarragona, Spain
    Biol Direct 3:38. 2008
    ..The CAI quantifies the similarity between the synonymous codon usage of a gene and the synonymous codon frequency of a reference set...
  6. ncbi Gaining and losing the thermophilic adaptation in prokaryotes
    Pere Puigbò
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University URV, 43007 Tarragona, Spain
    Trends Genet 24:10-4. 2008
    ..Our findings suggest several examples in which the capacity of thermophilic adaptation has been gained or lost over relatively short evolutionary periods throughout the evolution of prokaryotes...
  7. ncbi Towards reconstructing a metabolic tree of life
    Marina Marcet-Houben
    Evolutionary Genomics Group, Biochemistry and Biotechnology Department, Rovira i Virgili University, Campus Sescelades, C Marcel li Domingo s n, 43007 Tarragona, Spain
    Bioinformation 2:135-44. 2007
    ..thermophilum and Clostridia, combined with other evidence, suggest that S. thermophilum may be re-classified as Firmicutes, Clostridia...