Tienda-Luna IM, Yin Y, Carrion MC, Huang Y, Cai H, Sanchez M, Wang Y (2008) Inferring the skeleton cell cycle regulatory network of malaria parasite using comparative genomic and variational Bayesian approaches. Genetica. 132:131–142. Jun 12; [Epub ahead of print].
Tienda-Luna IM, Yin Y, Huang Y, Padillo DPR, Wang Y. (2008) Constructing Gene Networks Using Variational Bayesian Variable Selection. Artificial Life. Special Issue on Systems Biology. 14(1):65-79.
Lu Y, Tian Q, Liu F, Sanchez M, Wang Y (2007) Interactive Semi-Supervised Learning for Microarray Analysis. IEEE/ACM Transactions on Computational Biology and Bioinformatics. 4(2): 190-203.
Lu Y, Tian Q, Sanchez M, Neary J, Liu F, Wang Y (2007) Learning Microarray Gene Expression Data by Hybrid Discriminant Analysis. IEEE Multimedia. Special Issue on Multimedia Signal Processing and Systems in Healthcare and Life Sciences. 14(4):22-31.
Huang Y, Wang J, Zhang J, Sanchez M, Wang Y (2007) Bayesian Inference of Genetic Regulatory Networks from Time Series Microarray Data Using Dynamic Bayesian Networks. Journal of Multimedia. 2: 46-56.
Gu J*, Neary JL*, Sanchez M, Yu J, Lilburn TG, Wang Y (2007) Genome Evolution and Functional Divergence in Yersinia. Journal of Experimental Zoology Part B: Molecular and Developmental Evolution. 308:37-49. [Epub ahead of print]. (*: Equally contributed)
Lilburn TG, Wang Y (2006) Systems biology and computer aided drug discovery. Current Computer-Aided Drug Design. 2:267-274.
Chen G, Zhu Y, Wang Y, Xu X, Lu T (2006) Determination of bioactive constituents in traditional Chinese medicines by CE with electrochemical detection. Current Medicinal Chemistry 13:2467-2485.
Gu X, Wang Y, Gu J, Velden KV, Xu DP (2006) Predicting Type-I (Rate-Shift) Functional Divergence of Protein Sequences and Applications in Functional Genomics. Current Genomics. 7: 87-96.
Eisen JA, Wu M, Wu D, Thiagarajan M, Wortman JR, Badger JH, Ren Q, Amedeo P, Jones KM, Tallon LJ, Delcher AL, Salzberg SL, delToro C, Ryder HF, Williamson SC, Barbeau RA, Silva1 JC, Haas BJ, Majoros WH, Farzad M, Carlton JM, Garg J, Pearlman RE, Karrer KM, Sun L, Smith RK, Manning G, Elde NC, Turkewitz AP, Asai DJ, Wilkes DE, Wang Y, Cai H, Collins K, Wilamowska K, Ruzzo WL, Weinberg Z, Stewart BA, Lee SL, Wloga D, Rogowski K, Frankel J, Gaertig J, Tsao C, Gorovsky MA, Keeling PJ, Waller RF, Patron NJ, Cherry JM, Stover NA, Krieger CJ, Hamilton EP, Orias E, Coyne RS. (2006) Macronuclear genome sequence of the ciliate Tetrahymena thermophila, a model eukaryote. PLoS Biology. 4(9):e286.
Florens L, Liu X, Wang Y, Yang S, Schwartz O, Peglar M, Carucci DJ, Yates JR 3rd, Wu Y (2004) Proteomics approach reveals novel proteins on the surface of malaria-infected erythrocytes. Molecular and Biochemical Parasitology. 135(1):1-11.
Wang Y, Wu Y(2004) Computer assisted searches for drug targets with emphasis on malarial proteases and their inhibitors. Current Drug Targets: Infectious Disorders. 4(1):25-40.
Feng X, Carlton JM, Joy DA, Mu J, Furuya T, Suh B, Wang Y, Barnwell JW, Su X-Z. (2003) Genome diversity and the origin of Plasmodium vivax. Proc. Natl. Acad. Sci. USA. 100:8502-8507.
Wu Y, Wang X, Liu X, Wang Y (2003) Data-mining approaches reveal hidden families of proteases in the genome of Malaria parasite. Genome Research. 13: 601-616. Wang Y, Pollak E (2002) The effective number of a population that varies cyclically in size. II. Continuous generations. Mathematical Biosciences. 179: 161-181.
Wang Y, Gu X (2002) Evolutionary and expression profiles of gene families crucial for central nervous system development. Information Sciences. 145:215-223.
Gu X, Wang Y, Gu J (2002) Age-distribution of human gene families showing equal roles of large and small-scale duplications in vertebrate evolution. Nature Genetics. 31:205-209.
Gu J, Wang Y, Gu X (2002) Functional divergence of Jak gene family: an evolutionary perspective. Journal of Molecular Evolution. 54:725-733.
Gu X, Wang Y, Gu J (2002) Evolutionary perspective for functional divergence of gene family and Applications in functional genomics. Current Genomics. 3:201-211.
Wang Y, Gu X (2001) Functional divergence in caspase gene family and altered functional constraints: statistical analysis and prediction. Genetics. 158: 1311-1320.
Wang Y, Pollak E (2000) The effective number of a population that varies cyclically in size. I. Discrete generations. Mathematical Biosciences. 166: 1-21.
Wang Y, Gu X (2000) Evolutionary patterns of gene families generated in the early stage of vertebrates. Journal of Molecular Evolution. 51:88-96.
Conference Papers:
Neary JL, Sanchez M, Lilburn TG, Wang Y. (2007) Pathway Complements of Four Yersinia. IEEE 7th International Symposium on Bioinformatics & Bioengineering (BIBE 2007). October 14-17, 2007. Cambridge-Boston, MA.
Courage JF, Gupta S, Wang Y. (2007) Characterization of MYC expression in gefitinib versus Acute Myeloid Leukemia reveals novel therapeutic targets. IEEE 7th International Symposium on Bioinformatics & Bioengineering (BIBE 2007). October 14-17, 2007. Cambridge-Boston, MA.
Neary JL, Montanez A, Lilburn TG, Wang Y (2007) Metabolic Pathway Complements of Five Francisella Strains. The 2007 International Conference on Bioinformatics and Computational Biology (BioComp 07). June 25-28, 2007. Las Vegas, NV, pp 528-532.
Gu J, Neary JL, Moshfeghian A, Cai H, Agaian A, Lilburn TG, Wang Y (2007) Lineage Specific Expansion in Vibrio species. The 2007 International Conference on Bioinformatics and Computational Biology (BioComp 07). June 25-28, 2007. Las Vegas, NV, pp 540-544.
Lu Y, Tian Q, Liu F, Sanchez M, Wang Y (2006). A Self-Supervised Learning Framework for Classifying Microarray Gene Expression Data. International Workshop on Bioinformatics Research and Applications (IWBRA). Lecture Notes in Computer Science. 3992: 686-693.
Huang Y, Wang J, Wang Y, Zhang J, (2006) Reverse engineering yeast gene regulatory networks using graphical models. IEEE 31st International Conference on Acoustics, Speech, and Signal Processing (ICASSP). May 14-19, 2006, Toulouse, France.
Lu Y, Tian Q, Sanchez M, Wang Y (2006). Interactive Learning for Classifying Microarray Gene Expression Data. IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS). May 28-30, 2006, College Station, Texas.
Lu Y, Tian Q, Sanchez M, Wang Y (2006). Self-Supervised Learning for Gene Classification on Microarray Data. IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS), May 28-30, 2006, College Station, Texas.
Luna LT, Yin Y, Huang Y, Wang Y, Padillo DPR, Perez MCC (2006). Uncovering Gene Rregulatory Networks Using Variational Bayes Variable Selection. IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS), May 28-30, 2006, College Station, Texas.
Lu Y, Tian Q, Sanchez M, Wang Y. (2005) Hybrid PCA and LDA Analysis of Microarray Gene Expression Data. IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB). San Diego, CA. November 14-15, 2005. 372-377.
Cai H, Agaian S, Sanchez M, Gu J, Wang Y (2005) Wavelet analysis on temporal expression profiles of malaria parasite. Proceedings of the 8th Joint Conference on Information Science. Track: 6th International Symposium on Computational Biology and Genome Informatics (CBGI). Salt Lake City, UT. July 21-26, 2005. 1191-1194.
Huang Y, Wang Y, Wang J, Sanchez M, Zhang J (2005) Bayesian Inference of Cell Cycle Regulatory Networks. IEEE International Workshop on Genomic Signal Processing and Statistics (GENSIPS). New Port, Rhode Island. May 22-24, 2005.
Wang Y, Gu X (2002) Evolutionary analysis for developmental profiles of gene family expression in central nervous system. In: Proceedings of the Sixth Joint Conference on Information Sciences (JCIS2002). 1231-1236.
Gu J, Wang Y, Gu X (2001) Statistical testing for protein functional divergence after major evolutionary events. In: Proceedings of the Atlantic Symposium on Computational Biology, Genome Information Systems & Technology. 176-180.
Wang Y, Gu J, Gu X (2001) Patterns of functional divergence after gene duplications in vertebrate gene families: altered functional constraints. In: Proceedings of the Atlantic Symposium on Computational Biology, Genome Information Systems & Technology. 181-185.