Jia-Ming Chang

Research Assistant

Intelligent Agent Systems Lab

Institute of Information Science, Academia Sinica

Taipei, Taiwan

Tel: 886-2-2788-3799 ext. 2353

Fax: 886-2-2651-8660

Email: jmchang@iis.sinica.edu.tw

Address: IIS, 128 Academia Road, Section 2, Nankang, Taipei 115, Taiwan InGoogleMap

Vita Education Experience Research Interests Publications
Tools Academic Activities Extracurricular Activities


Educations
09/2000-06/2002 M.S.,

Department of Computer Science,
Nation Tsing Hua University, Hsinchu, Taiwan

Thesis: Compact Set Relation and Its Application in the Evaluation of the Evolutionary Tree and Multiple Sequence Alignment.
Supervisor: Prof. Chuan Yi Tang

09/1996-06/2000 B.S., Department of Computer Science,
Nation Tsing Hua University, Hsinchu, Taiwa
   
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Experience
2002-present Research Assistant Intelligent Agent Systems Lab, Institute of Information Science, Academia Sinica
Supervisors: Dr. Wen-Lian Hsu and Dr. Ting-Yi Sung
02/2007-present Teaching Assistant Graph Algorithms and Their Applications to Bioinformatics, National Taiwan University
09/2000-02/2001 Teaching Assistant Computer Programing Laboratory, Nation Tsing Hua University
09/2000-12/2000 Part-time Software Engineer Esound Technology Corporation
01/2000-06/2000 Part-time Software Engineer Acer Display Technology, Inc. (renamed to AU Optronics Corp. in 2001)
   
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Research Interests
  • Structure bioinformatics: protein secondary structure prediction; NMR backbone assignment
  • Protein functional analyses: protein subcellular localization prediction
  • Sequence analysis: constrained multiple sequence alignment
  • Molecular evolution: evaluation of evolutionary tree
  • Design and analysis of discrete algorithms and statistical learning
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Publications
Journals
  1. Wu, K.P., Chang, J.M., Chou, W.C., Chen, J.B., Sung, T.Y., Chang, C.F., Wu, W.J., Huang, T.H. and Hsu, W.L. (2006) RIBRAXAn Error-Tolerant Algorithm for the NMR Backbone Assignment Problem. Journal of Computational Biology, 13, 229-244.
  2. Lin, H.N., Wu, K.P., Chang, J.M., Sung, T.Y. and Hsu, W.L. (2005) GANAXa genetic algorithm for NMR backbone resonance assignment. Nucleic Acids Research, 33, 4593-4601.
  3. Lin, H.N., Chang, J.M., Wu, K.P., Sung, T.Y. and Hsu, W.L. (2005) HYPROSP II-A knowledge-based hybrid method for protein secondary structure prediction based on local prediction confidence. Bioinformatics, 21, 3227-3233.
  4. Wu, K.P., Lin, H.N., Chang, J.M., Sung, T.Y. and Hsu, W.L. (2004) HYPROSP: a hybrid protein secondary structure prediction algorithm-knowledge-based approach. Nucleic Acids Research, 32, 5059-5065.
  5. Tang, C.Y., Lu, C.L., Chang, M.D.T., Tsai, Y.T., Sun, Y.J., Chao, K.M., Chang, J.M., Chiou, Y.H., Wu, C.M., Chang, H.T. et al. (2003) Constrained Multiple Sequence Alignment Tool Development and Its Application to RNase Family Alignment. Journal of Bioinformatics and Computational Biology, 1, 267-287.
  6. Chang, J.M., Su, C.Y., Chiu, H.U., Lo, Allan, Sung, T.Y. and Hsu, W.L. Protein Subcellular Localization Prediction based on based on gapped-dipeptides and probabilistic latent semantic analysis. (Submitted to PROTEINS: Structure, Function, and Bioinformatics, Under Major Revision)
Conferences
  1. Yang, E.W., Chang, J.M., Lin, H.N., Sung, T.Y. and Hsu, W.L. (2007) HYPROSP III - A new knowledge-base prediction method for protein secondary structure prediction based on decision fusion. Sixth International Conference on Bioinformatics (InCoB2007) HongKong-Hanoi-Nansha.
  2. Wu, K.P., Chang, J.M., Chou, W.C., Chen, J.B., Sung, T.Y., Chang, C.F., Wu, W.J., Huang, T.H. and Hsu, W.L. (2005) RIBRA-an Error-Tolerant Algorithm for the NMR Backbone Assignment Problem. The Ninth Annual International Conference on Research in Computational Molecular Biology (RECOMB 2005), 103-117.
  3. Tang, C.Y., Lu, C.L., Chang, M.D.T., Tsai, Y.T., Sun, Y.J., Chao, K.M., Chang, J.M., Chiou, Y.H., Wu, C.M., Chang, H.T. et al. (2002) Constrained Multiple Sequence Alignment Tool Development and Its Application to RNase Family Alignment. Proceedings of the First IEEE Computer Society Bioinformatics Conference (CSB 2002),127-137. (Times cited:16)
  4. Tang, C.Y., Lu, C.L., Chang, M.D.T., Sun, Y.J., Tsai, Y.T., Chang, J.M., Chiou, Y.H., Wu, C.M., Chang, H.T., Chou, W.I. et al. (2002) Constrained Sequence Alignment Tool Development and Its Application to RNase Family Alignment. Proceedings of the 2002 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS 2002), 365-370. (Oral presetation)
  5. Chang, J.M., Tang, C.Y. and Chang, C.L. (2002) Compact Set Neighboring Relation and Its Application in Evaluating Evolution Tree. Workshop on Algorithms and Computational Molecular Biology, International Computer Symposium (ICS 02)
Posters
  1. Chang, J.M., Su, Emily C.Y., Lo, Allan, Chiu, H.S., Sung, T.Y. and Hsu, W.L. (2007) A Document Classification Strategy to Predict Protein Subcellular Localization Using Sequence Motifs and Evolutionary Information. Poster at the 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2007, poster session) *Su, Emily C.Y. was awarded a travel fellowship.
  2. Chang, J.M., Su, Emily C.Y., Lo, Allan, Chiu, H.S., Sung, T.Y. and Hsu, W.L. (2007) PSLDoc: Protein Subcellular Localization prediction based on Document classification. Poster at The Eleventh Annual International Conference on Research in Computational Molecular Biology (RECOMB 2007, poster session).
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Academic Activities
Reviewer, The Third International Conference on Algorithmic Aspects in Information and Management (AAIM), 2007.
Attendee, The 4th Asia-Pacific bioinformatics conference, (APBC 2006) Taipei, Taiwan.
Attendee, International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS 2002), Las Vegas, USA.
 
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Tools
HYPROSP II Protein 2D Structure Prediction *I am a collaborator.
RIBRA NMR Backbone Assignment  
PSLDoc Protein Subcellular Localization Prediction  
   
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Extracurricular Activities
2006 2:27:56 Half Marathon, Taroko Internaltional Marathon, Hualien , Taiwan
2007/Fer 02~04 H3,183M South Mountain, Taiwan
 
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Last update: Sep. 27, 2007