1.      Bayesian modeling and computation in bioinformatics research

In Current Topics in Computational Biology, pp 11-44. Ed. T. Jiang, Y. Xu, and M. Zhang. MIT Press. ISBN: 0262100924

2.      Convergence Analyses and Comparisons of Markov Chain Monte Carlo Algorithms in Digital Communications

 IEEE Trans. Sig. Proc., 50, 255-270. With Rong Chen and X. Wang.  

3.      Monte Carlo Bayesian Signal Processing for Wireless Communications …

 Journal of VLSI Signal Processing 30, 89-105. Joint with X. Wang and R. Chen.

4.      Bayesian haplotype inference for multiple linked single nucleotide polymorphisms

Am. J. Hum.Genet., 70 157-169. Joint with T Niu, S Qin and X Xu.

Download the HAPLOTYPER Users’ Documentation and sample tests.

5.      An Algorithm for Finding Protein-DNA Interaction Sites with Applications to Chromatin Immunoprecipitation Microarray Experiments

 Nature Biotechnology, 20, 835-39.

Joint with XS Liu and DL Brutlag. Link to the MDscan algorithm.

6.      BALSA: Bayesian algorithm for local sequence alignment

 Nucl. Acids Res., 30 1268-77. Joint with B.M. Webb and C. E. Lawrence.

7.      Methylation of histone H3 Lys 4 in coding regions of active genes

       Proc. Nat. Acad. Sci. USA, 99 (13) 8695-00. Joint with Bernstein et al. (Schreiber lab).

8.      A New Sequential Importance Sampling Method with Its Application to the 2D Hydrophobic-hydrophilic Model

Journal of Chemical Physics, 117, 3492-98. Joint with Junni L. Zhang.

9.      A Bayesian Method for Classification of Images from Electron Micrographs

 J. Struct. Biol., 138, 157-170. Joint with M. Samso et al. (Chip Lawrence lab)

10.  Partition-Ligation Expectation-Maximization algoithm for haplotype inference with single-nucleotide polynorphisms

Am. J. Hum. Genet., 71, 1242-47. With Z.S. Qin and T. Niu.  

11.  Bioinformatics: Microarrays Analyses and Beyond.

Amstat News, Sept Issue, 59-67.