Spring 2016. Bio-medicine Text Mining and Knowledge discovery
Course Schedule: Week 1: (19, Apr) Ch1. Introduction (slides) (22, Apr) Ch2. Foundation Of Mathematical Algorithm (Slides) (Assignment) Week 2: (26, Apr) Ch3. Foundation Of Linguistics (Slides) (29, Apr) Ch4. Dataset And Text Retrieval (Slides) (Assignment) Week 3: (10, May) Ch5. Case Study I. Text Classification (Slides) (13, May) Ch6. Case Study II. NER (Slides) Week 4: (17, May) Ch7. _Case Study III. Semantic Relation Mining (Slides) (20, May) Ch8. Case Study IV. Entity and Semantic Week 5: (24, May) Ch9. Discussion I (Group Discussion) (27, May) Ch10. Case Study V. Clinic Info & Pheno-Genotype TM Week 6: (31, May) Ch11. Case Study VI: Corpus-Based Method (3, Jun) Ch12. Discussion II (Conclusion Discussion)
References: [1] Langedijk, J., Mantel-Teeuwisse, A. K., Slijkerman, D. S., & Schutjens, M. H. D. (2015). Drug repositioning and repurposing: terminology and definitions in literature. Drug discovery today. (For group discussion) [2] Huang, C. C., & Lu, Z. (2015). Community challenges in biomedical text mining over 10 years: success, failure and the future. Briefings in bioinformatics, bbv024. (For Group Discussion, choose one from 2, 3.) [3] Hirschberg, J., & Manning, C. D. (2015). Advances in natural language processing. Science, 349(6245), 261-266. (For Group Discussion, Choose one from 2, 3.) [4] Zhang, W., Zou, H., Luo, L., Liu, Q., Wu, W., & Xiao, W. (2015). Predicting potential side effects of drugs by recommender methods and ensemble learning. Neurocomputing. (For Group Discussion, choose one from 4, 5.) [5] Patki, A., Sarker, A., Pimpalkhute, P., Nikfarjam, A., Ginn, R., O’Connor, K., ... & Gonzalez, G. (2014). Mining adverse drug reaction signals from social media: going beyond extraction. Proceedings of BioLinkSig, 2014. (For Group Discussion, Choose one from 4, 5.) [6] Hao, T., Chen, X., & Huang, G. (2015). Discovering Commonly Shared Semantic Concepts of Eligibility Criteria for Learning Clinical Trial Design. InAdvances in Web-Based Learning–ICWL 2015 (pp. 3-13). Springer International Publishing. (For Group Discussion) [7] Wang, Z. Y., &Zhang, H. Y. (2013). Rational drug repositioning by medical genetics. Nature biotechnology, 31(12), 1080-1082. (For Group Discussion)