Journal Papers

Under Review Journal:
1. Song, M., Yu, H.J., and Han, W.S. (2012). Extracting Biomedical Concepts from Fulltext by Relative Importance in a Graph Model, International Journal of Data Mining and Bioinformatics (SCIE)

2. Yang, C., Tang, X., Song, M. (2012). Understanding the Development across Scientific Research Domains using a Hybrid Analysis, JASIST. (SSCI)

3. Lee, S.J., Choi, J.J., Park, K.H., Song, M., and Lee, D.H. (2012) Discovering context-specific relationships from biological literature by using multi-level context terms, BMC Medical Informatics and Decision Making 2012. (SCIE)
4. Song, M. and Song, I.-Y. (2012). TAKES: Two-step Approach for Knowledge Extraction in Biomedical Digital Libraries, Data and Knowledge Engineering. (SCI)
5. Song, M., Yang, C., Tang, X. (2012). Detecting Evolution of Bioinformatics with a Content and Co-authorship Analysis, BMC Bioinformatics. (SCIE)

6. Ho, S. M., Song, M. Bieber, M., Zhang X. (2012) IntegraL Makes Sense – Collective Intelligence Enabled by Anchor-based Federated Search Infrastructure, Journal of Information Science (SSCI)

7. Song, M. (2012) Text Mining in Historic Medical Archives, The Scientist (SSCI)

Published Papers
1. Zhang, L., Bieber, M., Song, M., Oria, V., and Millard, D. Supplementing Just-in-Time Hypermedia Functionality for Virtual Documents, Accepted in International Journal on Digital Libraries.
2. Song, M., Yu, H., and Han, W.S. (2011) A Semi-supervised Learning Technique to Extract Protein Interaction Sentences, BMC Bioinformatics
3. Lee, M., Lee, K. H., Song, M., Lee, D. (2011) Building the process-drug–side effect network to discover the relationship between biological Processes and side effects, BMC Bioinformatics 2011, 12(Suppl 2):S2 (29 March 2011)
4. Qi, T., Song, M., Yoon, S. J., Watrous-deVersterre, L. (2011) Combining Supervised Learning Techniques to Key-phrase Extraction for Biomedical Full-text, accepted in International Journal of Intelligent Information Technologies (IJIIT) 7(1): 33-44.
5. Ijaz, A.Z., Song, M. and Lee, D. (2010) MKEM: a Multi-level Knowledge Emergence Model for Mining Undiscovered Public Knowledge, BMC Bioinformatics, 11(Suppl 2):S3 doi:10.1186/1471-2105-11-S2-S3.
6. Song, M. and Rudniy, A. (2010) Detecting Duplicate Biological Entities using Markov Random Field-based Edit Distance, to be published in 2010 Knowledge and Information Systems.
7. Song, M. and Liu, H. (2010) AbbrevExtractor: a Robust Extraction Technique for Biomedical Literature, to be published in 2009, International Journal of Functional Informatics and Personalised Medicine, vol. 3, no. 2.
8. Rudniy, A., Song, M., Geller, J. (2010) Detecting Duplicate Biological Entities Using Shortest Path Edit Distance, to be published in 2010, International Journal of Data Mining and Bioinformatics.

Conference Papers

1. Markson, C. and Song, M. A Technique for Suggesting Related Wikipedia Articles using Link Analysis, JCDL 2012
2. Tanapaisankit, P., Watrous-De Versterre, L. and Song, M. Personalized Query Expansion in the QIC System, JCDL 2012
3. Watrous-Deversterre, L., Wang, C. and Song, M. Concept Chaining utilizing Meronyms in Text Characterization, JCDL 2012

4. Rudniy, A. Geller, J. and Song, M. "Histogram Difference String Distance for Enhancing Ontology Integration in Bioinformatics," accepted in Int. Conf. on Bioinf. and Comp. Biol., March 2012, Las Vegas, NV.
5. Song, M., Bleik, S., Yu, H., Han, W.S. (2011) Extracting Biomedical Concepts from Fulltext by Relative Importance in a Graph Model, BHI
6. Oh, J., Park, S., Yu, H., Song, M. and Park, S.T. (2011). Novel Recommendation based on Personal Popularity Tendency, The IEEE International Conference on Data Mining series (ICDM), 2011.
7. Xu, G., Song, M., and Feng, J. (2011). Research on Multi-agent Comprehensive Evaluation Model Based on Attribute Coordinate, IEEE International Conference on Granular Computing. 2011.
8. Tanapaisankit, P. Song, M., Fox, E. A. (2011) Developing a Concept Extraction Technique with Ensemble Pathway, JCDL 2011
9. Bleik, S., Wei, X., Wang, Y., Song, M. (2010) Biomedical Concept Extraction using Concept Graphs and Ontology-based Mapping, BIBM
10. Lee, S., Lee, D. H., Song, M. (2010) Discovering Biological Processes and Side Effects Relationship Using the Process-drug-side effect Network, DTMBIO
11. Rudniy, A., Geller, J., and Song, M. (2010) Shortest Path Edit Distance for Enhancing UMLS Integration and Audit, American Medical Informatics Association 2010
12. Song, M., Yu, W. J., and Han, W. S. (2010) Combining Active Learning and Semi-supervised Learning Techniques to Extract Protein Interaction Sentences, BIOKDD 10, in conjunction with KDD 2010, Washington, D.C. July 25.
13. Rudniy, A., Song, M., and Geller, J. (2010) Shortest Path Edit Distance for Detecting Duplicate Biological Entities. ACM International Conference on Bioinformatics and Computational Biology.
14. Ho, S. M., Song, M., Bieber, M., (2010) IntegraL: The Effectiveness of a Link-based Federated Search Infrastructure, iConference 2010.
15. Xiong, W., Song, M., Watrous-deversterre, L. (2010) A Quantitative Assessment of SENSATIONAL with an Exploration of Its Applications, FLAIRS 2010.

Under development
Song, M. (2012) Detecting the Knowledge Structure of Bioinformatics with Text Mining and Citation Analysis
Song, M. (2012) Understanding Topic Evolution in Bioinformatics
Choi, J.J., Lee, S.J., Song, M. and Lee, D.H. (2011). A Topological Pattern Comparison Algorithm of Multi-type Interaction Networks for Undiscovered Public Knowledge Inference
Detecting User Query Intent in the Biomedical Domain
BoDBES: Boosted Dictionary-based Biomedical Entity Spotter
Mining Undiscovered Public Knowledge with Graph Model