Benchmark Evaluation of Protein-Protein Interaction Prediction Algorithms.

ABSTRACT: Protein-protein interactions (PPIs) perform various functions and regulate processes throughout cells. Knowledge of the full network of PPIs is vital to biomedical research, but most of the PPIs are still unknown. As it is infeasible to discover all of them experimentally due to technical and resource limitations, computational prediction of PPIs is essential and accurately assessing the performance of algorithms is required before further application or translation. However, many published methods compose their evaluation datasets incorrectly, using a higher proportion of positive class data than occuring naturally, leading to exaggerated performance. We re-implemented various published algorithms and evaluated them on datasets with realistic data compositions and found that their perform

SUBMITTER: Dunham B 

PROVIDER: S-EPMC8746451 | biostudies-literature | 2021 Dec

REPOSITORIES: biostudies-literature