FrameDP: Sensitive peptide detection on noisy matured sequences

Bioinformatics

Volumn 25, Issue 5, 2009, Pages 670-671

  Gouzy, Jérôme ^a   Carrere, Sébastien ^a   Schiex, Thomas ^b  

^a LABORATOIRE DES INTERACTIONS PLANTES MICROORGANISMES LIPM   (France)

^b CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

CYTIDINE; GUANOSINE;

ARTICLE; CODING; COMPUTER INTERFACE; COMPUTER PROGRAM; HIDDEN MARKOV MODEL; ONLINE SYSTEM; PEPTIDE ANALYSIS; PREDICTION; PRIORITY JOURNAL; PROTEIN DATABASE; SEQUENCE ANALYSIS;

EID: 61449124151     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/btp024     Document Type: Article

References (8)

1. Altschul,S.F. et al. (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res. 25, 3389-3402.
2. Carrerc,S. and Gouzy,J. (2006) REMORA: A pilot in the ocean of BioMoby web-services. Bioinformatics, 22, 900-901.
3. Celeux,G. and Govaert,G. (1992) A classification EM algorithm for clustering and two stochastic versions. Comput. Star. Data Anal., 14, 315-332.
4. Fukunishi,Y and Hayashizaki,Y. (2001) Amino acid translation program for full-length cDNA sequences with frameshift errors. Physiol. Genomics 5, 81-87.
5. Journet,E.P. et al. (2002) Exploring root symbiotic program in the model legume Medicago truncatula using EST analysis. Nucleic Acids Res., 30, 5579-5592.
6. Lottaz,C. et al. (2003) Modeling sequencing errors by combining hidden Markov models. Bioinformatics, 19(Suppl. 2), ii103-ii112.
7. Schiux,T. et al. (2003) FrameD: A flexible program for quality check and gene prediction in prokaryotic genomes and noisy matured eukaryotic sequences. Nucleic Acids Res., 31, 3738-3741.
8. Wasmuth,J.D. and Blaxter,M.L. (2004) prot4EST: Translating expressed sequence tags from neglected genomes. BMC Bioinformatics, 5, 187.