📝 SummarXiv

Abstract

miRNA mRNA relations are closely linked to several biological processes and disease mechanisms In a recent study we tested the performance of large language models LLMs on extracting miRNA mRNA relations from PubMed PubMedBERT achieved the best performance of 0.783 F1 score for miRNA mRNA Interaction Corpus MMIC Here we first applied the finetuned PubMedBERT model to extract miRNA mRNA relations from PubMed for chronic obstructive pulmonary disease COPD Alzheimers disease AD stroke type 2 diabetes mellitus T2DM chronic liver disease and cancer Next we retrieved miRNA drug relations using KinderMiner a literature mining tool for relation extraction Then we constructed three interaction networks 1 disease centric network 2 drug centric network and 3 miRNA centric network comprising 3497 nodes and 16417 edges organized as a directed graph to capture complex biological relationships Finally we validated the drugs using MIMIC IV Our integrative approach revealed both established and novel candidate drugs for diseases under study through 595 miRNA drug relations extracted from PubMed To the best of our knowledge this is the first study to systematically extract and visualize relationships among four distinct biomedical entities miRNA mRNA drug and disease