Professor Karin Verspoor

  • Room: Level: 03 Room: 3.27
  • Building: Doug McDonell Building
  • Campus: Parkville

Research interests

  • Bioinformatics and Computational Bioscience
  • Biomedical Natural Language Processing (Text Mining)
  • Health informatics (Biomedical ontologies)

Personal webpage

http://www.textminingscience.com

Recent publications

  1. Bouadjenek, MR.; Zobel, J.; Verspoor, K. Automated assessment of biological database assertions using the scientific literature. BMC Bioinformatics. BMC. 2019, Vol. 20, Issue 1, pp. 1-22. DOI: 10.1186/s12859-019-2801-x
  2. Nguyen, DQ.; Verspoor, K. End-to-end neural relation extraction using deep biaffine attention. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). SpringerLink. 2019, Vol. 11437 LNCS, pp. 729-738. DOI: 10.1007/978-3-030-15712-8_47
  3. Dat, QN.; Verspoor, K. From POS tagging to dependency parsing for biomedical event extraction. BMC Bioinformatics. BMC. 2019, Vol. 20, Issue 1. DOI: 10.1186/s12859-019-2604-0
  4. Dogan, RI.; Kim, S.; Chatr-aryamontri, A.; Wei, C-H.; Comeau, DC.; Antunes, R.; Matos, S.; Chen, Q.; Elangovan, A.; Panyam, NC.; Verspoor, K.; Liu, H.; Wang, Y.; Liu, Z.; Altinel, B.; Husunbeyi, ZM.; Ozgur, A.; Fergadis, A.; Wang, C-K.; Dai, H-J.; Tran, T.; Kavuluru, R.; Luo, L.; Steppi, A.; Zhang, J.; Qu, J.; Lu, Z. Overview of the BioCreative VI Precision Medicine Track: mining protein interactions and mutations for precision medicine. Database. OXFORD UNIV PRESS. 2019, Vol. 2019. DOI: 10.1093/database/bay147
  5. Névéol, A.; Yepes, AJ.; Neves, M.; Verspoor, K. Parallel corpora for the biomedical domain. LREC 2018 - 11th International Conference on Language Resources and Evaluation. European Language Resources Association. 2019, pp. 286-291.
  6. Hur, B.; Hardefeldt, LY.; Verspoor, K.; Baldwin, T.; Gilkerson, JR. Using natural language processing and VetCompass to understand antimicrobial usage patterns in Australia.. Australian Veterinary Journal. Wiley. 2019. DOI: 10.1111/avj.12836
  7. Hameed, PN.; Verspoor, K.; Kusljic, S.; Halgamuge, S. A two-tiered unsupervised clustering approach for drug repositioning through heterogeneous data integration. BMC Bioinformatics. BMC. 2018, Vol. 19, Issue 1. DOI: 10.1186/s12859-018-2123-4
  8. Downie, LE.; Makrai, E.; Bonggotgetsakul, Y.; Dirito, LJ.; Kristo, K.; Pham, M-AN.; You, M.; Verspoor, K.; Pianta, MJ. Appraising the Quality of Systematic Reviews for Age-Related Macular Degeneration Interventions A Systematic Review. JAMA Ophthalmology. AMER MEDICAL ASSOC. 2018, Vol. 136, Issue 9, pp. 1051-1061. DOI: 10.1001/jamaophthalmol.2018.2620
  9. Chen, Q.; Panyam, NC.; Elangovan, A.; Verspoor, K. BioCreative VI Precision Medicine Track system performance is constrained by entity recognition and variations in corpus characteristics. Database. OXFORD UNIV PRESS. 2018, Vol. 2018. DOI: 10.1093/database/bay122
  10. Verspoor, K.; Ofoghi, B.; Robles Granda, M. CommViz: Visualization of semantic patterns in large social communication networks. Information Visualization. SAGE PUBLICATIONS LTD. 2018, Vol. 17, Issue 1, pp. 66-88. DOI: 10.1177/1473871617693039
  11. Chen, Q.; Wan, Y.; Zhang, X.; Lei, Y.; Zobel, J.; Verspoor, K. Comparative Analysis of Sequence Clustering Methods for Deduplication of Biological Databases. Journal of Data and Information Quality. ASSOC COMPUTING MACHINERY. 2018, Vol. 9, Issue 3. DOI: 10.1145/3131611
  12. Nguyen, DQ.; Verspoor, K. Convolutional neural networks for chemical-disease relation extraction are improved with character-based word embeddings. Proceedings of the BioNLP 2018 workshop. Association for Computational Linguistics. 2018, pp. 129-136.
  13. Pianta, MJ.; Makrai, E.; Verspoor, KM.; Cohn, TA.; Downie, LE. Crowdsourcing critical appraisal of research evidence (CrowdCARE) was found to be a valid approach to assessing clinical research quality. Journal of Clinical Epidemiology. ELSEVIER SCIENCE INC. 2018, Vol. 104, pp. 8-14. DOI: 10.1016/j.jclinepi.2018.07.015
  14. Hoogeveen, D.; Bennett, A.; Li, Y.; Verspoor, KM.; Baldwin, T. Detecting misflagged duplicate questions in community question-answering archives. 12th International AAAI Conference on Web and Social Media, ICWSM 2018. AAAI Press. 2018, pp. 112-120.
  15. Khumrin, P.; Ryan, A.; Juddy, T.; Verspoor, K. DrKnow: A Diagnostic Learning Tool with Feedback from Automated Clinical Decision Support.. AMIA ... Annual Symposium proceedings. AMIA Symposium. 2018, Vol. 2018, pp. 1348-1357.
  16. Panyam, NC.; Verspoor, K.; Cohn, T.; Ramamohanarao, K. Exploiting graph kernels for high performance biomedical relation extraction. J. Biomedical Semantics. BMC. 2018, Vol. 9, Issue 1. DOI: 10.1186/s13326-017-0168-3
  17. Lu, Y.; Sinnott, RO.; Verspoor, K.; Parampalli, U. Privacy-Preserving Access Control in Electronic Health Record Linkage. 2018 17th IEEE International Conference On Trust, Security And Privacy In Computing And Communications/ 12th IEEE International Conference On Big Data Science And Engineering (TrustCom/BigDataSE). IEEE Explore. 2018, pp. 1079-1090. DOI: 10.1109/TrustCom/BigDataSE.2018.00151
  18. Chen, Q.; Zhang, X.; Wan, Y.; Zobel, J.; Verspoor, K. Search Effectiveness in Nonredundant Sequence Databases: Assessments and Solutions.. Journal of Computational Biology. Mary Ann Liebert. 2018, Vol. 26, Issue 6, pp. 605-617. DOI: 10.1089/cmb.2018.0198
  19. Lu, Y.; Sinnott, RO.; Verspoor, K. Semantic-Based Policy Composition for Privacy-Demanding Data Linkage. 2018 17th IEEE International Conference On Trust, Security And Privacy In Computing And Communications/ 12th IEEE International Conference On Big Data Science And Engineering (TrustCom/BigDataSE). IEEE Explore. 2018, pp. 348-359. DOI: 10.1109/TrustCom/BigDataSE.2018.00060
  20. Romano, S.; Vinh, NX.; Verspoor, K.; Bailey, J. The randomized information coefficient: assessing dependencies in noisy data. Machine Learning. SPRINGER. 2018, Vol. 107, Issue 3, pp. 509-549. DOI: 10.1007/s10994-017-5664-2

View a full list of publications on the University of Melbourne’s ‘Find An Expert’ profile