title: TranScout: prediction of gene expression regulatory proteins from their sequences.
abstract: BACKGROUND
  The advent of genomics yields thousands of reading frames in search of function. Identification of conserved functional motifs in protein sequences can be helpful for function prediction.
  
  
  RESULTS
  A database and a classification of reported DNA-binding protein motifs has been designed. A program ('TranScout') has been developed for the detection and evaluation of conserved motifs in prokaryotic and eukaryotic sequences of proteins with a gene regulatory function. The efficiency of the program is shown in a benchmark against a database obtained from SWISS-PROT without the protein sequences used to train the program. All motifs were detected with a mean average sensitivity of 0.98 and a mean average specificity of 0.92.
  
  
  BACKGROUND
  The program is freely available for use on the internet at http://luz.uab.es/transcout/. The user can find additional information at this site.
authors.affiliation: Institut de Biotecnologia i de Biomedicina and Departament de Bioquimica i Biologia Molecular, Universitat Autònoma de Barcelona, 08193 Bellaterra, Barcelona, Spain.
authors.forename: Daniel
authors.initials: D
authors.lastname: Aguilar
authors.forename: Baldomero
authors.initials: B
authors.lastname: Oliva
authors.forename: Francesc X
authors.initials: FX
authors.lastname: Aviles
authors.forename: Enrique
authors.initials: E
authors.lastname: Querol
mesh_terms: D000465:Algorithms; D020816:Amino Acid Motifs / Q000235:genetics*; D017124:Conserved Sequence / Q000235:genetics; D004268:DNA-Binding Proteins / Q000737:chemistry / Q000145:classification* / Q000235:genetics*; D003628:Database Management Systems; D030561:Databases, Nucleic Acid; D030562:Databases, Protein; D005786:Gene Expression Regulation / Q000235:genetics*; D016680:Genome, Bacterial; D016247:Information Storage and Retrieval / Q000379:methods; D008969:Molecular Sequence Data; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D016415:Sequence Alignment / Q000379:methods
chemical_list: D004268:DNA-Binding Proteins