YANG-MING INSTITUTE OF BIOMEDICAL INFORMATICS
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  • 職稱:    研究員, 中央研究院生物醫學科學研究所
  • 學歷:    美國匹茲堡大學化學工程博士
  • 辦公室:  中研院生醫所N121室
  • 電話:    886-2-27899033
  • Email:   mjhwangat.pngibms.sinica.edu.tw
  • 個人網頁http://gln.ibms.sinica.edu.tw/mjhwang.php
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  • 基因體序列分析、蛋白結構分析、電腦模擬
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  • Journal Papers

  • Tzou, W.-S., Hwang, M.-J., (1997) “A Model for Fis N-Terminus and Fis-Invertase Recognition,” FEBS Lett. 401:1-5. (NSC 85-2311-B-001-030-B16).
  • Yang, P.-K., Lee, C.-Y., Hwang, M.-J., (1997) “Shaker Pore Structure as Predicted by Annealed Atomic Simulation Using Symmetry and Novel Geometric Restraints,” Biophys. J. 72:2479-2489 (NSC 85-2113-M-001-011 & 86-2314-B-001-035).
  • Tzou, W.-S., Hwang, M.-J., (1997) “Introduction to Protein Structure Predictions,” (in Chinese) Chemistry (The Chinese Chem. Soc., Taiwan China), 55:101-109.
  • Peng, Z., Ewig, C.S., Hwang, M.-J., Waldman, M., Hagler, A.T., (1997) “Derivation of Clase II Force Fields. 4. van der Waals Parameters of Alkali Metal Cations and Halide Anions,” J. Phys. Chem., 101: 7243-7252.
  • Maple, J.R., Hwang, M.-J., Jalkanen, K.J., Stockfisch, T.P., Hagler, A.T., (1998) “Derivation of Class II Force Fields. 5. Quantum Force Field for Amides, Peptides, and Related Compounds,” J. Comput. Chem.,19:430-458.
  • Hwang, M.-J., Ni, X., Waldman, M., Ewig, C.S., Hagler, A.T., (1998) “Derivation of Class II Force Fields. 6. Carbohydrate Compounds and Anomeric Effects,” Biopolymers. 45:435-468.
  • Chu, P.-Y., Hwang, M.-J., (1998) “New Insights for Dinucleotide Backbone Binding in Conserved C5’-H…O Hydrogen Bonds,” J. Mol. Biol. 279:695-701.
  • Lee, C.-Y., Yang, P.-K., Tzou, W.-S., Hwang, M.-J., (1998) “Estimates of Binding Free Energies for HIV Protease Inhibitors Using Different Levels of Approximations,” Protein Eng.11:429-437 (NSC86-2811-B-001-0029).
  • Lin, W.-J., Hwang, M.-J. (1998) “VHMPT: a graphical Viewer and editor for Helical Membrane Protein Topologies,” Bioinformatics, 14:866-868.
  • Cheng, Y.-S., Tang, T.K., Hwang, M.-J. (1999) “Amino Acid Conservation and Clinical Severity of Human Glucose-6-Phosphate Dehydrogenase Mutations,” J. Biomed. Sci. 6:106-114 (NSC87-2314-B-001-034).
  • Tzou, W.-S., Hwang, M.-J. (1999) “Modeling Helix-Turn-Helix Protein-Induced DNA Bending with Knowledge-Based Distance Restraints,” Biophys. J., 77: 1191-1205.
  • Lai, H.-L., Lin, T.-H., Kao, Y.-Y., Lin, W.-J., Hwang, M.-J., Chern, Y. (1999) “The N-Terminal Domain of Type VI Adenylyl Cyclase Mediates Its Inhibition by Protein Kinase C,” Mol. Pharmacol., 56: 644-650.
  • Yang, P.-K., Tzou, W.-S., Hwang, M.-J. (1999) “Restraint-Driven Formation of 脉-Helical Coiled Coils in Molecular Dynamics Simulations,” Biopolymers, 50: 667-677 (NSC85-2113-M-001-011).
  • Hwang, M.-J., Chu, P.-Y., Chen, J.-C., Chao, I. (1999) “Conformational Analysis of Three Pyrophosphate Model Species: Diphosphate, Methyl Diphosphate, and Triphosphate,” J. Comput. Chem., 20: 1702-1715 (NSC86-2811-B-001-022).
  • Chen, J.-W., Luo, Y.-L., Hwang, M.-J.*, Peng, F.-C., Ling, K.-H.* (1999) “Territrem B, a tremorgenic mycotoxin that inhibits acetylcholinesterase with a non-covalent yet irreversible binding mechanism,” J. Biol. Chem., 274:34916-34923.(*corresponding authors)
  • Liu, C.L., Tsai, C.C., Lin, S.C., Wang, L.I., Hsu, C.I., Hwang, M.-J., Lin, J.Y. (2000) “Primary Structure and Function Analysis of the Abrus precatorius Agglutinin A Chain by Site-directed Mutagenesis,” J. Biol. Chem., 275: 1897-1901.
  • Yao, P.-L.; Hwang, M.-J.*; Chen, Y.-M.; Yeh, K.-W.* (2001) “Site-Directed Mutagenesis Evidence for a Negatively Charged Trypsin Inhibitory Loop in Sweet Potato Sporamin.” FEBS Lett., 496: 134-138 (*corresponding authors).
  • Ewig, C. S., Berry, R., Dinur, U., Hill, J.R., Hwang, M.-J., Li, H., Liang, C., Maple, J., Peng, Z.W., Stockfisch, T.P., Thacher, T.S., Yan, L., Ni, X., Hagler, A.T. (2001) “Derivation of Class II Force Fields. VIII. Derivation of a General Quantum Mechanical Force Field for Organic Compounds.” J. Comput. Chem., 22:1782-1800.
  • Lin, T.H., Lai, H.L., Kao, Y.Y., Sun, C.N., Hwang, M.-J., Chern, Y. (2002) “Protein Kinase C Inhibits Type VI Adenylyl Cyclase (ACVI) by Phosphorylating the Regulatory N Domain and Two Catalytic C1 and C2 Domains.” J. Biol. Chem.277: 15721-15728
  • Chen, L.Y.Y., Lu, S.H., Shih, S.C., Hwang, M.-J. (2002) “Single Nucleotide Polymorphism Mapping Using Genome-wide Unique Sequences.” Genome Research 12: 1106-1111
  • Yang, J.M.*, Tsai, C.H., Hwang, M.-J.*, Tsai, H.K., Hwang J.K., Kao, C.Y. (2002) “GEM: a Guassian Evolutionary Method for Predicting Protein Side-chain Conformations.” Protein Sci. 11: 1897-1907 (*corresponding authors)
  • Shih, Edward S.C., Hwang, M.-J. (2003) “Protein Structure Comparison by Probability-Based Matching of Secondary Structure Elements.” Bioinformatics 19:735-741.
  • Chen, M.-C., Hwang, M.-J., Chou, Y.-C., Chen, W.-H., Cheng, G.,Nakano, H., Luh, T.-Y., Mai, S.-C., Hsieh, S.-L. (2003) “The Role of ASK1 in Lymphotoxin-beta Receptor-Mediated Cell Death.” J. Biol. Chem., 278:16073-16081.
  • Yeh CS, Chen FM, Wang JY, Cheng TL, Hwang MJ, Tzou WS. (2003) “Directional Shape Complementarity at The Protein-DNA Interface.” J. Mol. Recognit., 16(4): 213-222
  • Shih SR, Chiang C, Chen TC, Wu CN, Hsu JT, Lee JC, Hwang MJ,Li ML, Chen GW, Ho MS (2004) “Mutations at KFRDI and VGK domains of enterovirus 71 3C protease affect its RNA binding and proteolytic activities.” J Biomed Sci. 11(2):239-248
  • Shih E. S, Hwang M.-J. (2004) “Alternative Alignments from Comparison of Protein Strutures.” Proteins: Structure, Function and Bioinformatics 56: 519-527
  • Lee I.-Y., Soong T.-T., Ho J.-M., Hwang M.-J. (2004) “Derivation and Analysis of Fragment Libraries of Protein Structures.” Fourth IEEE Symposium on Bioinformatics and Bioengineering (BiBE’04), Taichung, Taiwan. May 19-21, pp516-521
  • Kao Y.-Y., Lai H.-L., Hwang M.-J., Chern Y. (2004) “An Important functional role of the N terminus domain of type VI adenylyl cyclase (ACVI) in Gia-mediated inhibition.” J Biol Chem. 279: 34440-34448
  • Liao B.-Y., Chang Y.-J., Ho J.-M., Hwang M.-J. (2004) “The UniMarker (UM) Method for Synteny Mapping of Large Genomes.” Bioinformatics 20: 3156-3165
  • Soong, T.-T., Hwang M.-J., Chen, C.-M. (2004) “Discovery of Recurrent Structural Motifs for Approximating Three-Dimensional Protein Structures.” J. Chin. Chem. Soc. 51: 1107-1114
  • Wang, S.-L., Chen, C.-M., Hwang M.-J. (2005) “Classification of Protein 3D Folds by Hidden Markov Learning on Sequences of Structural Alphabets. ” Proceedings of The Third Asia-Pacific Bioinformatics Conference, Singapore, January 17-21. pp65-72
  • Xie, Z.-R., Hwang M.-J. (2006) “A New Neural Network for B-Turn Predictions: The Effect of Site-Specific Amino Acid Preference.” Proceedings of The Fourth Asia-Pacific Bioinformatics Conference, Taipei, February 13-16. pp237-246
  • Pao, S.-Y, Lin, W.-L, Hwang M.-J. (2006) “In silico identification and comparative analysis of differentially expressed genes in human and mouse tissues. ” BMC Genomics, 7:86
  • Shih, E.S.C., Gan, R.-C., Hwang M.-J. (2006) “OPAAS: a web server for Optimal, Permuted, and other Alternative Alignments of protein Structures. ” Nucleic Acids Research (web server issue) W95-W98
  • Chang, D.T.H., Weng, Y.-Z., Lin, J.-H., Hwang M.-J., Oyang, Y.-J. (2006) “Protemot: prediction of protein-binding sites with automatically extracted geometrical templates. ” Nucleic Acids Research (web server issue) W303-W309
  • Conference Papers
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