Evaluation of annotation strategies using an entire genome sequence - Archive ouverte HAL Accéder directement au contenu
Article Dans Une Revue Bioinformatics Année : 2003

Evaluation of annotation strategies using an entire genome sequence

Sophia Tsoka
  • Fonction : Auteur
Miguel Andrade
  • Fonction : Auteur
Anton Enright
  • Fonction : Auteur
Mark Carroll
  • Fonction : Auteur
Patrick Poullet
Javier Tamames
  • Fonction : Auteur
Asutosh T. Yagnik
  • Fonction : Auteur
Anna Tramontano
  • Fonction : Auteur
Damien Devos
  • Fonction : Auteur
Christian Blaschke
  • Fonction : Auteur
Alfonso Valencia
  • Fonction : Auteur
  • PersonId : 842405
David Brett
  • Fonction : Auteur
David Martin
Christophe Leroy
  • Fonction : Auteur
Chris Sander
Christos Ouzounis
  • Fonction : Auteur

Résumé

MOTIVATION: Genome-wide functional annotation either by manual or automatic means has raised considerable concerns regarding the accuracy of assignments and the reproducibility of methodologies. In addition, a performance evaluation of automated systems that attempt to tackle sequence analyses rapidly and reproducibly is generally missing. In order to quantify the accuracy and reproducibility of function assignments on a genome-wide scale, we have re-annotated the entire genome sequence of Chlamydia trachomatis (serovar D), in a collaborative manner. RESULTS: We have encoded all annotations in a structured format to allow further comparison and data exchange and have used a scale that records the different levels of potential annotation errors according to their propensity to propagate in the database due to transitive function assignments. We conclude that genome annotation may entail a considerable amount of errors, ranging from simple typographical errors to complex sequence analysis problems. The most surprising result of this comparative study is that automatic systems might perform as well as the teams of experts annotating genome sequences

Mots clés

Fichier principal
Vignette du fichier
article.pdf (99.31 Ko) Télécharger le fichier
Origine : Publication financée par une institution
Loading...

Dates et versions

hal-00170772 , version 1 (16-11-2020)

Identifiants

Citer

Ioannis Iliopoulos, Sophia Tsoka, Miguel Andrade, Anton Enright, Mark Carroll, et al.. Evaluation of annotation strategies using an entire genome sequence. Bioinformatics, 2003, 19 (6), pp.717-26. ⟨10.1093/bioinformatics/btg077⟩. ⟨hal-00170772⟩
62 Consultations
136 Téléchargements

Altmetric

Partager

Gmail Facebook X LinkedIn More