Benchmarking gene ontology function predictions using negative annotations.

ABSTRACT:

Motivation

With the ever-increasing number and diversity of sequenced species, the challenge to characterize genes with functional information is even more important. In most species, this characterization almost entirely relies on automated electronic methods. As such, it is critical to benchmark the various methods. The Critical Assessment of protein Function Annotation algorithms (CAFA) series of community experiments provide the most comprehensive benchmark, with a time-delayed analysis leveraging newly curated experimentally supported annotations. However, the definition of a false positive in CAFA has not fully accounted for the open world assumption (OWA), leading to a systematic underestimation of precision. The main reason for this limitation is the relative paucity of neg

SUBMITTER: Warwick Vesztrocy A 

PROVIDER: S-EPMC7355306 | biostudies-literature | 2020 Jul

REPOSITORIES: biostudies-literature