Yang Q. and Sze S.-H. (2008) Large-scale analysis of gene clustering in bacteria. Genome Research, 18, 949-956.
Yang Q. and Sze S.-H. (2008) Predicting protein folding pathways at the mesoscopic level based on native interactions between secondary structure elements. BMC Bioinformatics, 9(320).
Lu S., Zhang F., Chen J. and Sze S.-H. (2007) Finding pathway structures in protein interaction networks. Algorithmica, 48, 363-374.
Yang Q. and Sze S.-H. (2007) Path matching and graph matching in biological networks. Journal of Computational Biology, 14, 56-67.
Yi G., Sze S.-H. and Thon M.R. (2007) Identifying clusters of functionally related genes in genomes. Bioinformatics, 23, 1053-1060.
Lee J.J., Hassan O.S.S., Gao W., Wei N.E., Kohel R.J., Chen X.-Y., Payton P., Sze S.-H., Stelly D.M. and Chen Z.J. (2006) Developmental and gene expression analyses of a cotton naked seed mutant. Planta, 223, 418-432.
Sze S.-H., Lu Y. and Yang Q. (2006) A polynomial time solvable formulation of multiple sequence alignment. Journal of Computational Biology, 13, 309-319.
Wang N., Lu S.-E., Yang Q., Sze S.-H. and Gross D.C. (2006) Identification of the syr-syp box in the promoter regions of genes dedicated to syringomycin and syringopeptin production by Pseudomonas syringae pv. syringae B301D. Journal of Bacteriology, 188, 160-168.
Yang S.S., Cheung F., Lee J.J., Ha M., Wei N.E., Sze S.-H., Stelly D.M., Thaxton P., Triplett B., Town C.D. and Chen Z.J. (2006) Accumulation of genome-specific transcripts, transcription factors and phytohormonal regulators during early stages of fiber cell development in allotetraploid cotton. The Plant Journal, 47, 761-775.
Wang J., Adelson D.L., Yilmaz, A., Sze S.-H., Jin Y. and Zhu J.J. (2005) Genomic organization, annotation, and ligand-receptor inferences of chicken chemokines and chemokine receptor genes based on comparative genomics. BMC Genomics, 6(45).
Heber S., Alekseyev M., Sze S.-H., Tang H. and Pevzner P.A. (2002) Splicing graphs and EST assembly problem. Bioinformatics, 18, S181-188.
Lunyak V.V., Burgess R., Prefontaine G.G., Nelson C., Sze S.-H., Chenoweth J., Schwartz P., Pevzner P.A., Glass C., Mandel G. and Rosenfeld M.G. (2002) Corepressor-dependent silencing of chromosomal regions encoding neuronal genes. Science, 298, 1747-1752.
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Chen J., Lu S., Sze S.-H. and Zhang F. (2007) Improved algorithms for path, matching, and packing problems. Proceedings of the 18th Annual ACM-SIAM Symposium on Discrete Algorithms (SODA'2007), 298-307.
Lu Y. and Sze S.-H. (2007) Multiple sequence alignment based on profile alignment of intermediate sequences. Proceedings of the 11th Annual International Conference on Research in Computational Molecular Biology (RECOMB'2007), Lecture Notes in Bioinformatics, 4453, 283-295.
Liu Y., Lu S., Chen J. and Sze S.-H. (2006) Greedy localization and color-coding: improved matching and packing algorithms. Proceedings of the 2nd International Workshop on Parameterized and Exact Computation (IWPEC'2006), Lecture Notes in Computer Science, 4169, 84-95.
Sze S.-H. and Zhao X. (2006) Improved pattern-driven algorithms for motif finding in DNA sequences. Proceedings of the 2005 Joint RECOMB Satellite Workshops on Systems Biology and Regulatory Genomics, Lecture Notes in Bioinformatics, 4023, 198-211.
Sze S.-H., Lu Y. and Yang Q. (2005) A polynomial time solvable formulation of multiple sequence alignment. Proceedings of the 9th Annual International Conference on Research in Computational Molecular Biology (RECOMB'2005), Lecture Notes in Bioinformatics, 3500, 204-216.
Sze S.-H., Lu S. and Chen J. (2004) Integrating sample-driven and pattern-driven approaches in motif finding. Proceedings of the 4th Workshop on Algorithms in Bioinformatics (WABI'2004), Lecture Notes in Bioinformatics, 3240, 438-449.
Heber S., Alekseyev M., Sze S.-H., Tang H. and Pevzner P.A. (2002) Splicing graphs and EST assembly problem. Proceedings of the 10th International Conference on Intelligent Systems for Molecular Biology (ISMB'2002).
Sze S.-H., Gelfand M.S. and Pevzner P.A. (2002) Finding weak motifs in DNA sequences. Pacific Symposium on Biocomputing (PSB'2002), 235-246.
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