New GO-based measures in multiple network alignment.
Bioinformatics
; 40(8)2024 08 02.
Article
in En
| MEDLINE
| ID: mdl-39082966
ABSTRACT
MOTIVATION Protein-protein interaction (PPI) networks provide valuable insights into the function of biological systems. Aligning multiple PPI networks may expose relationships beyond those observable by pairwise comparisons. However, assessing the biological quality of multiple network alignments is a challenging problem. RESULTS:
We propose two new measures to evaluate the quality of multiple network alignments using functional information from Gene Ontology (GO) terms. When aligning multiple real PPI networks across species, we observe that both measures are highly correlated with objective quality indicators, such as common orthologs. Additionally, our measures strongly correlate with an alignment's ability to predict novel GO annotations, which is a unique advantage over existing GO-based measures. AVAILABILITY AND IMPLEMENTATION The scripts and the links to the raw and alignment data can be accessed at https//github.com/kimiayazdani/GO_Measures.git.
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Gene Ontology
Limits:
Humans
Language:
En
Journal:
Bioinformatics
Journal subject:
INFORMATICA MEDICA
Year:
2024
Document type:
Article
Affiliation country:
Estados Unidos
Country of publication:
Reino Unido