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

• Yue, F., Zheng, W.J., and Tang, J., "A Comparative Genomic Approach to Identify Human Transcription Factor DNA-Binding Motifs," in preparation.

2009

• Luo, H., Sun, Z., Arndt, W., Shi, J., Friedman, R. and Tang, J., "Gene Order Phylogeny and the Evolution of Methanogens," PLoS ONE 2009, 4(6): e6069 PDF.
• Shepherd, J., Tang, J. and O'Kane, J., "Path-finding with Motion Constraints in Real Time Strategies," Computer Games and Allied Technologies (CGAT) 2009, 83-90.
• Zhang, M., Arndt, W. and Tang, J., "An Exact Median Solver for the DCJ Distance," Proc. 2009 Pacific Symposium on Biocomputing (PSB 2009), 138-149.
• Swenson, K.M., Dong, Y., Tang, J., and Moret, B.M.E., "Maximum Independent Sets of Commuting and Noninterfering Inversions," Proc. 7th Asia-Pacific Bioinformatics Conf. (APBC 2009), in BMC Bioinformatics 2009, 10(Suppl 1):S6.
• Yue, F., Shi, J. and Tang, J., "Simultaneous Phylogeny Reconstruction and Multiple Sequence Alignment," Proc. 7th Asia-Pacific Bioinformatics Conf. (APBC 2009), in BMC Bioinformatics 2009, 10(Suppl 1):S11.
• Yue, F. and Tang, J., "A Space-Efficient Algorithm for Three Sequence Alignment and Ancestor Inference", International Journal of Data Mining and Bioinformatics 2009, 3(2) 192-204.

2008

• Luo, H. Shi, J., Arndt, W., Tang, J. and Friedman, R., "Gene Order Phylogeny of the Genus Prochlorococcus," PLoS ONE 3(12): e3837 doi:10.1371/journal.pone.0003837. PDF
• Guo, Y. and J. Tang, "Phylogenetic Reconstruction with Disk-Covering and Bayesian Approaches," 8th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2008), accepted.
• 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), in Lecture Notes in Bioinformatics 5251, 14-24. PDF
• Arndt, W. and J. Tang, "Improving Reversal Median Computation using Commuting Reversals and Cycle Information", Journal of Computational Biology, 15, 8 (2008) 1079-1092. PDF
• Yue, F., Zhang, M. and Tang, J., "Phylogenetic Reconstruction from Transposition", BMC Genomics, 2008, 9 (suppl 2):S15. PDF
• Yue, F. and Tang, J., "A New Approach For Tree Alignment Based on Local Re-Optimization", 2008 International Conference on BioMedical Engineering and Informatics, 34-38.
• Yue, F., Cui, L., dePamphilis, C. Moret, B., and Tang, J., "Gene rearrangement analysis from chloroplast genomes with inverted repeat", BMC Genomics, , 2008, 9 (Suppl 1):S25. PDF
• 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), in Advances in Bioinformatics and Computational Biology, Vol. 6, 241-250, Imperial Press (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), 143-150.PDF
• 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), 888-895. PDF
• Yue, F., M. Zhang and J. Tang, "A Heuristic for Phylogenetic Reconstruction Using Transposition", Proc. 7th IEEE Conf. on Bioinformatics and Bioengineering (BIBE 2007), 802-808. 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), 731-737.
• 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., Yue, F., dePamphilis, C., Moret, B.M.E. and Tang, J., "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.PDF
• Zhang, M., Tang, J.,Guo, D.,Hu L., and Li, Q. "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., Leebens-Mack, J., Wang, L., Tang, J., Rymarquis, L., Stern, D. and dePamphilis, C., "Adaptive Evolution of Chloroplast Genome Structure Inferred Using a Parametric Bootstrap Approach," BMC Evolutionary Biology, 6:13, 2006. PDF

2005

• Tang, J. and Wang, L., "Improving Genome Rearrangement Phylogeny Using Sequence-Style Parsimony," Proc. 5th IEEE Conf. on Bioinformatics and Bioengineering (BIBE 2005), 137-144. PDF
• 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 2005), in Lecture Notes in Computer Science 3595, 63-73. PDF
• Tang, J., and Moret, B.M.E., "Linear Programming for Phylogenetic Reconstruction Based on Gene Rearrangements," Proc. 16th Symp. on Combinatorial Pattern Matching, (CPM 2005), in Lecture Notes in Computer Science 3537, 406-416. PDF
• 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. PDF

2004

• Tang, J., Moret, B.M.E., Cui, L., and dePamphilis, C., "Phylogenetic Reconstruction from Arbitrary Gene-order Data," Proc. 4th IEEE Conf. on Bioinformatics and Bioengineering (BIBE 2004), 592-599, IEEE Press (2004). PDF

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 2003), in Bioinformatics 19, (Suppl. 1) (2003), i305-i312. PDF
• 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 2003), in Lecture Notes in Computer Science 2748, 37-46. PDF

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 2002), inLecture Notes in Computer Science2452, 521-536. PDF
• Moret, B.M.E., Tang, J., Wang, L., and Warnow, T., "Steps Toward Accurate Reconstruction of Phylogenies from Gene-order Data," 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