Gene Ontology: Pitfalls, Biases, and Remedies.

Détails

Ressource 1Télécharger: 978-1-4939-3743-1_14 (1).pdf (436.87 [Ko])
Etat: Public
Version: Final published version
ID Serval
serval:BIB_CBFCF5FD756A
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Titre
Gene Ontology: Pitfalls, Biases, and Remedies.
Périodique
Methods in molecular biology
Auteur(s)
Gaudet P., Dessimoz C.
ISSN
1940-6029 (Electronic)
ISSN-L
1064-3745
Statut éditorial
Publié
Date de publication
2017
Peer-reviewed
Oui
Volume
1446
Pages
189-205
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: ppublish
Résumé
The Gene Ontology (GO) is a formidable resource, but there are several considerations about it that are essential to understand the data and interpret it correctly. The GO is sufficiently simple that it can be used without deep understanding of its structure or how it is developed, which is both a strength and a weakness. In this chapter, we discuss some common misinterpretations of the ontology and the annotations. A better understanding of the pitfalls and the biases in the GO should help users make the most of this very rich resource. We also review some of the misconceptions and misleading assumptions commonly made about GO, including the effect of data incompleteness, the importance of annotation qualifiers, and the transitivity or lack thereof associated with different ontology relations. We also discuss several biases that can confound aggregate analyses such as gene enrichment analyses. For each of these pitfalls and biases, we suggest remedies and best practices.

Mots-clé
Animals, Data Mining/methods, Databases, Genetic, Gene Ontology, Humans, Molecular Sequence Annotation/methods, Proteins/genetics, Species Specificity, Bias, Confounding, Data mining, Gene ontology, Gene/protein annotation, Simpson’s paradox
Pubmed
Open Access
Oui
Création de la notice
30/11/2016 22:38
Dernière modification de la notice
20/08/2019 16:46
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