ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences.

Détails

ID Serval
serval:BIB_727A549B48DD
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
ESTScan: a program for detecting, evaluating, and reconstructing potential coding regions in EST sequences.
Périodique
Proceedings / ... International Conference On Intelligent Systems For Molecular Biology
Auteur(s)
Iseli C., Jongeneel C.V., Bucher P.
ISSN
1553-0833[print], 1553-0833[linking]
Statut éditorial
Publié
Date de publication
1999
Pages
138-148
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: ppublish
Résumé
One of the problems associated with the large-scale analysis of unannotated, low quality EST sequences is the detection of coding regions and the correction of frameshift errors that they often contain. We introduce a new type of hidden Markov model that explicitly deals with the possibility of errors in the sequence to analyze, and incorporates a method for correcting these errors. This model was implemented in an efficient and robust program, ESTScan. We show that ESTScan can detect and extract coding regions from low-quality sequences with high selectivity and sensitivity, and is able to accurately correct frameshift errors. In the framework of genome sequencing projects, ESTScan could become a very useful tool for gene discovery, for quality control, and for the assembly of contigs representing the coding regions of genes.
Mots-clé
Algorithms, Amino Acid Sequence, Base Sequence, DNA, Complementary/genetics, Exons, Expressed Sequence Tags, Gene Library, Markov Chains, Molecular Sequence Data, Reading Frames, Reproducibility of Results, Sensitivity and Specificity, Sequence Analysis, DNA, Sequence Homology, Amino Acid, Software
Pubmed
Création de la notice
24/01/2008 16:39
Dernière modification de la notice
03/03/2018 18:17
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