Ta-tsen Soong, PhD candidate, Dept of Biomedical Informatics, Columbia University

Ta-tsen Soong

PhD Candidate
Department of Biomedical Informatics,
Columbia University, NY

Email: firstname.lastnameATdbmiDOTcolumbiaDOTedu

I am a third-year PhD student in Dr. Burkhard Rost's lab. I'm interested in various aspects of biology and am developing bioinformatics algorithms to facilitate knowledge discovery. I have recently worked on experimental characterization of cytokinesis-related proteins in Dr. Fred Chang's lab. And previously in Dr. Andrea Califano's lab, I have integrated genomic data sources for evidence integration in systems biology.

I hold a master's degree in Biomedical Engineering from National Taiwan University. I also have several years of experience in structural bioinformatics working on algorithms for functional annotation, multiple structure alignment, structural motif discovery, and protein clustering at Dr. Ming-jing Hwang's Lab.

Publications:
1. Yanay Ofran, Guy Yachdav, Eyal Mozes, Ta-tsen Soong, Rajesh Nair, Burkhard Rost. (2006). Create and assess protein networks through molecular characteristics of individual proteins. Bioinformatics, 22:e402-7. PDF

2. Ta-Tsen Soong, Cheng-Yu Chen, and Ming-Jing Hwang. (2004). Conserved Local Structural Motifs for Functional Annotation of Protein Families. (manuscript to be submitted) Companion Web site: FoldZilla

3. Soong, T.T., Hwang, M.J., Chen, C.M., (2004). Discovery of Recurrent Structural Motifs for Approximating Three-Dimensional Protein Structures. Journal of the Chinese Chemical Society (SCI), 51 (5B), 1107-1114.

4. Lee, I.Y., Soong, T.T., Ho, J.M. Hwang, M.J., (2004). Derivation and Analysis of Fragment Libraries of Protein Structures. Proc. IEEE Fourth Symposium on Bioinformatics and Bioengineering (IEEE BIBE 2004). May, 2004 PDF

5. Soong, T.T. Clustering and Characterizing Local Protein Structures by an Expectation- Maximization (EM)-Assisted Approach. M.S. Thesis, NTU, 2002

Conference posters:
1. Soong, T.T., Chen, C.Y. Hwang, M.J., (Jan, 2004). Automatic Detection of Structural Motifs for Functional Annotation of Protein Families. Pacific Symposium on Biocomputing (PSB 2004), Hawaii, USA.

2. Soong, T.T., Hwang, M.J., Chen, C.M., (Nov, 2003). Automatic Discovery of Recurrent Local Structures for Approximating Three-Dimensional Protein Molecules. 4th East Asian Biophysics Symposium (4th EABS), Taipei, Taiwan.