GROOLS: reactive graph reasoning for genome annotation through biological processes.

ABSTRACT:

Background

High quality functional annotation is essential for understanding the phenotypic consequences encoded in a genome. Despite improvements in bioinformatics methods, millions of sequences in databanks are not assigned reliable functions. The curation of protein functions in the context of biological processes is a way to evaluate and improve their annotation.

Results

We developed an expert system using paraconsistent logic, named GROOLS (Genomic Rule Object-Oriented Logic System), that evaluates the completeness and the consistency of predicted functions through biological processes like metabolic pathways. Using a generic and hierarchical representation of knowledge, biological processes are modeled in a graph from which observations (i.e. predictions and expectatio

SUBMITTER: Mercier J 

PROVIDER: S-EPMC5896057 | biostudies-literature | 2018 Apr

REPOSITORIES: biostudies-literature