TCMGeneDIT: a database for associated traditional Chinese medicine, gene and disease information using text mining

摘要: Traditional Chinese Medicine (TCM), a complementary and alternative medical system in Western countries, has been used to treat various diseases over thousands of years East Asian countries. In recent years, many herbal medicines were found exhibit variety effects through regulating wide range gene expressions or protein activities. As available TCM data continue accumulate rapidly, an urgent need for exploring these resources systematically is imperative, so as effectively utilize the large volume literature. TCM, gene, disease, biological pathway protein-protein interaction information collected from public databases. For association discovery, names, disease ingredients annotate literature corpus obtained PubMed. The concept mine entity associations was based on hypothesis testing collocation analysis. annotated processed with natural language processing tools rule-based approaches applied sentences extracting relations between effecters effects. We developed database, TCMGeneDIT, provide about TCMs, genes, diseases, mined vast amount biomedical Integrated pathways are also regulations genes associated curative addition, transitive relationships among TCMs could be inferred shared intermediates. Furthermore, TCMGeneDIT useful understanding possible therapeutic mechanisms via deducing synergistic antagonistic contributions prescription components overall database now at http://tcm.lifescience.ntu.edu.tw/ . unique that offers diverse TCMs. This integrates studies would facilitate clinical research elucidate regulations.