GenoMiner: a tool for genome-wide search of coding and non-coding conserved sequence tags (Articolo in rivista)

Type
Label
  • GenoMiner: a tool for genome-wide search of coding and non-coding conserved sequence tags (Articolo in rivista) (literal)
Anno
  • 2006-01-01T00:00:00+01:00 (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#doi
  • 10.1093/bioinformatics/bti754 (literal)
Alternative label
  • Castrignano T, De Meo PD, Grillo G, Liuni S, Mignone F, Talamo IG, Pesole G. (2006)
    GenoMiner: a tool for genome-wide search of coding and non-coding conserved sequence tags
    in Bioinformatics (Oxf., Print)
    (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#autori
  • Castrignano T, De Meo PD, Grillo G, Liuni S, Mignone F, Talamo IG, Pesole G. (literal)
Pagina inizio
  • 497 (literal)
Pagina fine
  • 499 (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#numeroVolume
  • 22 (literal)
Rivista
Note
  • SCImago (literal)
  • ISI Web of Science (WOS) (literal)
Http://www.cnr.it/ontology/cnr/pubblicazioni.owl#affiliazioni
  • Consorzio Interuniversitario per le Applicazioni di Supercalcolo per Universita` e Ricerca, CASPUR, Rome, Italy, Istituto Tecnologie Biomediche, Sede di Bari, Consiglio Nazionale delle Ricerche, Italy University of Milan, Dipartimento di Scienze Biomolecolari e Biotecnologie, via Celoria 26, Milan 20133, Italy (literal)
Titolo
  • GenoMiner: a tool for genome-wide search of coding and non-coding conserved sequence tags (literal)
Abstract
  • GenoMiner is a software tool that searches for regions of similarity between user-submitted genome or transcript sequences and user-specified whole genome assemblies. The program then identifies conserved sequence tags (CSTs) in these homologous regions and provides a prediction of their coding or non-coding nature. The analysis is carried out through three steps: (1) definition of sequence regions homologous to the query sequence in the selected target genomes by a fast BLAT alignment; (2) identification of CSTs by a more sensitive BLAST-like alignment between the query and the homologous regions in the target genomes and (3) assessment of the coding or non-coding nature of detected CSTs through the computation of a suitable coding potential score. GenoMiner allows the user to search the query sequence against a number of vertebrate genome assemblies in a single run providing a user-friendly graphical output. (literal)
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