3A50 Swearingen Engineering Center
jtang at cse.sc.edu
803-777-8923(voice)
Name in Chinese: ÌƼ̾ü

Education

July 2004 Ph.D., Computer Science, University of New Mexico

May 2002 M.S., Computer Science, University of New Mexico

June 1996 M.S., Offshore Engineering, Tianjin University, China

June 1994 B.S., Naval Architecture, Tianjin University, China

Research Interests

Publication [back to top]

In Progress

• Swenson, K., Arndt, W., Tang, J. and Moret, B. "Maximum Independent Sets of Commuting and Noninterfering Inversions"
• Yue, F. and Tang, J. "A Median-Based Method for Simultaneous Multiple Sequence Alignment and Phylogenetic Reconstruction"
• Yue, F., Zheng, W.J., and Tang, J., "A Comparative Genomic Approach to Identify Human Transcription Factor DNA-Binding Motifs"

2008

• Zhang, M., W. Arndt and J. Tang, "A Branch-and-bound Method for the Multichromosomal Reversal Median Problem", 8th Workshop on Algorithms in Bioinformatics (WABI 2008), accepted.
• Arndt, W. and J. Tang, "Improving Inversion Median Computation using Commuting Reversals and Cycle Information", Journal of Computational Biology, accepted.
• Yue, F., Zhang, M. and Tang, J., "Phylogenetic Reconstruction from Transposition", BMC Genomics, accepted.
• Yue, F. and Tang, J., "A New Approach For Tree Alignment Based on Local Re-Optimization", 2008 International Conference on BioMedical Engineering and Informatics, accepted.
• Yue, F., Cui, L., dePamphilis, C. Moret, B., and Tang, J., "Gene rearrangement analysis from chloroplast genomes with inverted repeat", BMC Genomics, accepted.
• Yue, F. and Tang, J., "A Space-Effecient Algorithm for Three Sequence Alignment and Ancestor Inference", International Journal of Data Mining and Bioinformatics, accepted.
• Swenson, K., W. Arndt, J. Tang and B.M.E. Moret, "Phylogenetic Reconstruction from Complete Gene Orders of Whole Genomes", Sixth Asia Pacific Bioinformatics Conference (APBC 2008), PDF

2007

• Yue, F. and J. Tang, "A Divide-and-Conquer Implementation of Three Sequence Alignment and Ancestor Inference with Affine Gap Costs", The IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2007), Accepted.
• Bakos, J., P. Elenis and J. Tang, "FPGA Acceleration of Phylogeny Reconstruction for Whole Genome Data", Proc. 7th IEEE Conf. on Bioinformatics and Bioengineering (BIBE 2007).
• Yue, F., M. Zhang and J. Tang, "A Heuristic for Phylogenetic Reconstruction Using Transposition", Proc. 7th IEEE Conf. on Bioinformatics and Bioengineering (BIBE 2007) PDF
• Yue, F. and J. Tang, "Three Sequence Alignment and Ancestor Inference with Affine Gap Costs", Procedings of the 2007 International Conference on Bioinformatics and Computational Biology (Biocomp 2007).
• Arndt, W. and J. Tang, "Improving Inversion Median Computation using Commuting Reversals and Cycle Information", Fifth Annual RECOMB Satellite Workshop on Comparative Genomics (RECOMB-CG 2007), in Lecture Notes in Computer Science 4751, 30-44. PDF
• Ye, F., Y. Guo, A. Lawson and J. Tang, "Improving Tree Search in Phylogenetic Reconstruction from Genome Rearrangement Data", 6th Workshop on Experimental Algorithms (WEA 2007), in Lecture Notes in Computer Science 4525, 352-364. PDF
• Dalal, P., Munsell, B.C., Wang, S., Tang, J., Oliver, K., Ninomiya, H., Zhou, X. and Fujita, H., "A Fast 3D Correspondence Method for Statistical Shape Modeling", IEEE Conference on Computer Vision and Pattern Recognition (CVPR), Minneapolis, 2007. PDF

2006

• Cui, L., F. Yue, C. dePamphilis, B.M.E. Moret and J. Tang, "Inferring ancestral chloroplast genomes with inverted repeat," Procedings of the 2006 International Conference on Bioinformatics and Computational Biology (Biocomp'06), pp 75-81, Las Vegas, NV. PS
• Zhang, M., J. Tang, D. Guo, L. Hu and Q. Li, "Succinct Text Indexes on Large Alphabet". Third Annual Conference on Theory and Applications of Models of Computation (TAMC 2006), in Lecture Notes in Computer Science 3959, 528-537.PDF
• Cui, L., J. Leebens-Mack, L. Wang, J. Tang, L. Rymarquis, D. Stern, and C.W. dePamphilis. "Adaptive Evolution of Chloroplast Genome Structure Inferred Using a Parametric Bootstrap Approach." BMC "Evolutionary Biology, 6:13, 2006. PDF

2005

• Tang, J. and L. Wang, "Improving Genome Rearrangement Phylogeny Using Sequence-Style Parsimony," Proc. 5th IEEE Conf. on Bioinformatics and Bioengineering. PS
• Liu, T., Tang, J., and Moret, B.M.E., "Quartet methods for phylogeny reconstruction from gene orders," Proc. 11th Int'l Computing and Combinatorics Conference COCOON'05, Kunming (Yunnan, PR China). PS
• Tang, J., and Moret, B.M.E., "Linear programming for phylogenetic reconstruction based on gene rearrangements," Proc. 16th Symp. on Combinatorial Pattern Matching, CPM'05. PS
• Moret, B.M.E., Tang, J., and Warnow. T., "Reconstructing phylogenies from gene-content and gene-order data," in Mathematics of Evolution and Phylogeny, O. Gascuel, ed., Oxford Univ. Press (2005), 321-352. PS

2004

• Tang, J., Moret, B.M.E., Cui, L., and dePamphilis, C.W., "Phylogenetic reconstruction from arbitrary gene-order data" Proc. 4th IEEE Conf. on Bioinformatics and Bioengineering BIBE'04, 592-599, IEEE Press (2004). PS

2003

• Tang, J., and Moret, B.M.E., "Scaling up accurate phylogenetic reconstruction from gene-order data," Proc. 11th Int'l Conf. on Intelligent Systems for Molecular Biology ISMB'03, in Bioinformatics 19 (Suppl. 1) (2003), i305-i312. PS
• Tang, J., and Moret, B.M.E., "Phylogenetic reconstruction from gene rearrangement data with unequal gene contents," Proc. 8th Workshop on Algorithms and Data Structures WADS'03, in Lecture Notes in Computer Science 2748, 2003, 37-46. PS

2002

• Moret, B.M.E., Siepel, A.C., Tang, J., and Liu, T., "Inversion medians outperform breakpoint medians in phylogeny reconstruction from gene-order data," Proc. 2nd Int'l Workshop on Algorithms in Bioinformatics (WABI'02), Rome (2002), Lecture Notes in Computer Science 2452, 521-536, Springer Verlag. PS
• Moret, B.M.E., Tang, J., Wang, L.S., and Warnow, T., "Steps toward accurate reconstruction of phylogenies from gene-order data'' (invited, special issue on computational biology), J. Comput. Syst. Sci. 65, 3 (2002), 508-525. PS

Thesis

• "Large Scale Phylogenetic Reconstruction from Arbitrary Gene-order Data" Ph.D. Dissertation, 05/2004 PS
• "A Study of Bounding Methods for Reconstructing Phylogenies from Gene-Order Data" Master Thesis, 01/2002 PS

Others (none-reviewed conference and tech report)

• Moret, B.M.E. and Tang, J., "Improved bounding and searching for phylogeny reconstruction from gene-order data," UNM CS techreport TR-CS-2001-30.PS
• "Software Framework for Simulation of Deployable Optical Membrane Telescope Mirrors," Optical Society of America, Baltimore, 1998.HTML
• Tang, J., Desjarlais, L., Gerstle, W., Panthaki, M. and Sahu, R., "Application of CoMeT/SoftLab To Simulation of Multidisciplinary Systems," WAC2000, Hawaii, 06/2000.MS Word DOC