Protein-protein interaction sites prediction by ensemble random forests with synthetic minority oversampling technique.

ABSTRACT:

Motivation

The prediction of protein-protein interaction (PPI) sites is a key to mutation design, catalytic reaction and the reconstruction of PPI networks. It is a challenging task considering the significant abundant sequences and the imbalance issue in samples.

Results

A new ensemble learning-based method, Ensemble Learning of synthetic minority oversampling technique (SMOTE) for Unbalancing samples and RF algorithm (EL-SMURF), was proposed for PPI sites prediction in this study. The sequence profile feature and the residue evolution rates were combined for feature extraction of neighboring residues using a sliding window, and the SMOTE was applied to oversample interface residues in the feature space for the imbalance problem. The Multi-dimensional Scaling feature select

SUBMITTER: Wang X 

PROVIDER: S-EPMC6612859 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature