Title: Representation learning of drug and disease terms for drug repositioning,
Abstract: Drug repositioning (DR) refers to identification of novel indications for the
approved drugs. The requirement of huge investment of time as well as money and
risk of failure in clinical trials have led to surge in interest in drug
repositioning. DR exploits two major aspects associated with drugs and
diseases: existence of similarity among drugs and among diseases due to their
shared involved genes or pathways or common biological effects. Existing
methods of identifying drug-disease association majorly rely on the information
available in the structured databases only. On the other hand, abundant
information available in form of free texts in biomedical research articles are
not being fully exploited. Word-embedding or obtaining vector representation of
words from a large corpora of free texts using neural network methods have been
shown to give significant performance for several natural language processing
tasks. In this work we propose a novel way of representation learning to obtain
features of drugs and diseases by combining complementary information available
in unstructured texts and structured datasets. Next we use matrix completion
approach on these feature vectors to learn projection matrix between drug and
disease vector spaces. The proposed method has shown competitive performance
with state-of-the-art methods. Further, the case studies on Alzheimer's and
Hypertension diseases have shown that the predicted associations are matching
with the existing knowledge.