Brown, D., Li, M., & Ma, B. (2004). Homology search methods In The Practical Bioinformatician. L. Wong Ed. World Scientific, 217-244.
References
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Consortium, R. G. S. P., & Ma, B. (2004). Genome Sequence of the Brown Norway Rat Yields Insights into Mammalian Evolution Nature 428: 493-521.
Brejova, B., Brown, D., & Vinar, T. (2004). Optimal spaced seeds for homologous coding regions Journal of Bioinformatics and Computational Biology 1(4): 595-610.
Huang, M., Zhu, X., Hao, Y., Payan, D., Qu, K., & Li, M. (2004). Discovering patterns to extract protein-protein interactions from full texts Bioinformatics. 20 3604-3612.
Brown, D., & Hudek, A. (2004). New algorithms for multiple DNA sequence alignment
Xu, J., Li, M., & Xu, Y. (2004). Protein Threading by Linear Programming: Theoretical Analysis and Computational Results Journal of Combinatorial Optimization. 8:4, 403--418.
Brejova, B., Brown, D., & Vinar, T. (2004). The most probable labeling problem in HMMs and its applications to bioinformatics
Jiao, Y., Li, M., & Xu, J. (2004). On the k-Closest Substring and k-Consensus Pattern problems
Jiang, T., Lin, G., Ma, B., & Zhang, K. (2004). The Longest Common Subsequence Problem for Arc-Annotated Sequences Journal of Discrete Algorithms 2(2): 257-270.
Brown, D., Li, M., & Ma, B. (2004). A Tutorial of Recent Developments in the Seeding of Local Alignment Journal of Bioinformatics and Computational Biology 2(4): 819-842.