Predicting Drug-Target Interactions with Neighbor Interaction Information and Discriminative Low-rank Representation

Abstract

Background: Inferring drug-target interaction (DTI) candidates for new drugs or targets without any interaction information is a critical challenge for modern drug design and discovery. Results from existing DTI inference methods indicate that these approaches necessitate further improvement.

Methods: In this paper, we developed a novel DTI identification model (PreNNDS) by integrating Neighbor interaction profiles, Nonnegative matrix factorization, Discriminative low-rank representation, and Sparse representation classification into a unified framework.

Results: AUPR values on four types of datasets show that PreNNDS can efficiently identify potential DTIs for new drugs or targets. We listed predicted top 20 drugs interacting with hsa1132 and hsa1124 and top 20 targets interacting with D00255 and D00195.

Conclusions: PreNNDS can be applied to identify multi-target drugs and multi-drug resistance proteins, as well as to provide clues for microRNA-disease and gene-disease association prediction.

Keywords: Drug-target interaction; discriminative low-rank representation; neighbor interaction profile; new drugs or targets; nonnegative matrix factorization; sparse representation classification.