Hongfang Liu , PhD

Assistant Professor

Contact Information

Room 180, Building D
E-mail: hl224@georgetown.edu
Telephone: (202) 687-7933
Fax: (202) 687-2581

Affiliations

Lombardi Comprehensive Cancer Center

• Biostatistics and Bioinformatics Shared Resource
• Cancer Genetics and Epidemiology
• Cancer Prevention and Control

Hongfang Liu, PhD, is currently an Assistant Professor in Department of Biostatistics, Bioinformatics, and Biomathematics (DBBB) of Georgetown University. Prior to that, Dr. Liu worked at the Information Systems Department of University of Maryland at Baltimore County as an Assistant Professor. Dr. Liu received her BS degree in Applied Mathematics and Statistics from University of Science and Technology of China in 1994, the MS degree in Computer Science from Fordham University in 1998, and the PhD degree in computer science at the Graduate School of City University of New York in 2002.

Research Interests

• Biomedical text mining
• Machine learning and data mining
• Biomedical software engineering and development
• Bioinformatics specialized in biomedical databases and microarray data analysis

Publications

1. H. Liu, Z. Hu, M. Torii, C. Wu, and C. Friedman (2006, in press) Quantitative Assessment of Dictionary-based Protein Named Entity Tagging JAMIA.
2. H. Xu, M. Markatou, R Dimova, H. Liu, and C. Friedman (2006, in press) Machine Learning and Word Sense Disambiguation in the Biomedical Domain: Design and Evaluation Issues. BMC Bioinformatics.
3. G. Koru and H. Liu (2006, in press) Characterizing Change-Prone Modules in two large-scale open source products. Journal of Software and Systems.
4. H. Liu, D. F. Hsu (2006, in press) Generalized Shuffle-Exchange Networks: Combinatorial and Fault-Tolerant Properties. Journal of Dynamics of Continuous, Discrete and Impulsive Systems.
5. H. Liu, Z. Hu, and C Wu (2006) BioThesaurus: a thesaurus of gene and protein names. BioInformatics, Jan 1;22(1):103-5.
6. L. Zhou, Y.Tao, J.J. Cimino, E.S. Chen, H. Liu, Y. Lussier, G. Hripcsak, C. Friedman (2005, in press) Terminology Model Discovery Using Natural Language Processing and Visualization Techniques. Journal of Biomedical Informatics.
7. M. Torii, H. Liu (2006) Headwords and Suffixes in Biomedical Names, Proceedings of KDLL 2006. Lecture Notes in Bioinformatics, Eds. Bremer, E.G.; Hakenberg, J.; Han, E.-H.S.; Berrar, D.; Dubitzky, W.Vol. 3886.
8. G. Koru and H. Liu (2005) Building Effective Defect Prediction Models in Practice IEEE Software, IEEE Computer Society, 22 Vol 6.
9. H. Liu, Z. Hu, and C Wu (2005) DynGO: A tool for navigation and visualization of Gene Ontology resources. BMC Bioinformatics, BioMed Central Ltd, 2005, 6:201 (online journal).
10. L. Chen, H. Liu, C. Friedman (2005) Gene name ambiguity of eukaryotic nomenclatures Bioinformatics, Oxford Journals, 21 (2): 248-56.
11. Z. Hu, I. Mani, V. Hormoso, H. Liu, and C. Wu (2004) iProLINK: An Integrated Protein Resource for Literature Mining. Computational Biology and Chemistry, Elsevier Ltd., 28(5-6): 409-16.
12. H. Liu, V. Teller, C. Friedman (2004) A Multi-Variable Comparison Study of Supervised Word Sense Disambiguation. Journal of American Medical Informatics Association, Hanley & Belfus, 11 (4): 320-31.
13. H. A. Kestler, A. Müller , H. Liu, D.W. Kane, B. W. Zeeberg and J. N. Weinstein (2005, in press) Euler diagrams for visualizing annotated gene expression data. Euler Diagrams, Paris, France.
14. H. Liu, Z. Hu, C. Wu (2005) Dynamically Generating a Protein Entity Dictionary Using Online Resources. Proceedings of the ACL 2005 Interactive Poster and Demonstration, Ann Arbor, Michigan, 17-20.
15. A. G. Koru, H. Liu (2005) An Investigation of the Effect of Module Size on Defect Prediction Using Static Measures. Proceeding of PROMISE 2005. St. Louis, Missouri, 1-6.
16. H.Y. Chuang, H. Liu, S. Brown, C. McMunn-Coffran, C. Kao, D. F. Hsu (2004) Identifying Significant Genes from Microarray Data. Proceeding of IEEE Fourth Symposium on Bioinformatics and Bioengineering , Taiwan , 358-365.
17. H.Y. Chuang, H. Liu, F. Chen, C. Kao, D. F. Hsu (2004) Combination Methods in Microarray Analysis. Proceeding of International Symposium on Parallel Architectures, Algorithms, and Networks, Hong Kong, 625-630.
18. H. Liu, C. Wu, and C. Friedman (2004) BioTagger: a biological entity tagging system. BioCreative Workshop, Spain.
19. H. Liu and Cathy Wu (2004) A Study of Text Categorization for Model Organism Database. Proceeding of BioLink, Boston, MA.
20. H. Liu, C. Friedman Summarization and Presentation of Clinical Information in the Electronic Medical Record Based on Natural Language Processing and XML MEDINFO, San Francisco, CA, 639-43.
21. O. Tuason, L. Chen, H. Liu, J. Blake, and C. Friedman Biological Nomenclatures: A Source of Lexical Knowledge and Ambiguity. Pacific Symposium of Biocomputing, the Big Island, Hawaii, 238-49.
22. H. Liu, C. Friedman Mining Terminological Knowledge in Large Corpora. Pacific Symposium of Biocomputing, Lihue, Hawaii, USA, January 3-7, 2003: 415-26.
23. C Friedman, H. Liu, and L. Shagina (2003) Vocabulary Development Visualization Tool based on Natural Language Processing and the Mining of Textual Patient Reports. Journal of Biomedical Informatics, Elsevier Ltd., 36: 189-201.
24. H. Liu, SB. Johnson, C. Friedman (2002) Automatic Resolution of Ambiguous Terms Based on Machine Learning and Conceptual Relations in the UMLS. Journal of American Medical Informatics Association, Hanley & Belfus, 9(6):621-636.
25. H. Liu, Y. Lussier and C. Friedman (2001) Disambiguating Biomedical Terms in Biomedical Narrative Text: an Unsupervised Journal of Biomedical Informatics, Elsevier Ltd., 34 (4): 249-61.
26. H. Liu, AR. Aronson, C. Friedman (2002) A study of abbreviations in MedLINE. Abstracts Proceeding of Annual Symposium of American Medical Informatics Association< San Antonio, TX, 464-8.
27. H. Liu, Y. Lussier and C. Friedman (2001) A Study of Abbreviations in the UMLS. Proceeding of Annual Symposium of Americal Medical Informatics Association< Washington DC, 393-7.
28. C. Friedman, H. Liu, L. Shagina, S. Johnson, G. Hripcsak (2001) Evaluating the UMLS as a Source of Lexical Knowledge for Medical Language. Proceeding of Annual Symposium of American Medical Informatics Association< Washington DC, 189-93.
29. H. Liu, and C. Friedman (2000) A method for Vocabulary Development and Visualization Based on Medical Language processing and XML. Proceeding of Annual Symposium of American Medical Informatics Association< Los Angeles, CA, 502-6.
30. D. F. Hsu and H. Liu (2000) Regular Hierarchical Partitioning for Consensus. Protocols in Distributed Networks Proceedings of ISTN, Hangzhou, PR China, 386-391.
31. H. Liu, D. F. Hsu and S. Horiguchi (2000) Generalized Shuffle-Exchange Digraphs: Hamiltonian Properties. Proceedings of ISCAS, Orlando, FL, 1999:157-60.
32. C Friedman, Hripcsak G, Shagina L, and H. Liu (1999) Representing information in patient reports using natural language processing and the extensible markup language. Journal of American Medical Informatics Association, Hanley & Belfus, 6:76-87.
33. H. Liu, D. F. Hsu and H. Wan (1997) On Combinatorial Properties of Multihop WDM-Based Light wave. Networks Proceedings of ISTN, Xi'an, PR China,167-71.