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haplotype diversity in a 10-kb noncoding region in three continental human

populations. Genetics 174:399-409.

250. Hanada, K., T. Gojobori and W.-H. Li (2006) Radical amino acid change versus

positive selection in the evolution of viral envelope proteins. Gene 385:83-88.
251. Lin, Y.-S., J. K. Byrnes, J.-K. Hwang, and W.-H. Li (2006) Codon usage bias versus

gene conversion in the evolution of yeast duplicate genes. Proc. Natl. Acad. Sci.

USA. 103: 14412-14416.
252. Lin, Y.-S., J.-K. Hwang, and W.-H. Li (2006) Protein complexity, gene duplicability,

and gene dispensability in the yeast genome. Gene 387: 109-117.
253. Wu, W.-S., W.-H. Li and Bor-Sen Chen (2006) Computational reconstruction of

transcriptional regulatory modules of the yeast cell cycle. BMC Bioinformatics 7:421

(15 pages). PMID: 17010188
254. Saunders, M.A., J. M. Good, E. Lawrence, R. Ferrell, W.-H. Li, and M. W. Nachman

(2006) Human adaptive evolution at Myostatin, a regulator of muscle growth. Am. J.

Hum. Genet. 79:1089-1097.
255. Kim, J., S.-H. Shiu, S. Thoma, W.-H. Li and S. Patterson (2006) Patterns of

expansion and expression divergence in the plant polygalacturonase gene family.

Genome Biology, 7R87 (14 pages).

256. Chen, F.-C., C.-J. Chen, W.-H. Li and T.-J. Chuang (2007) Human-specific insertions

and deletions inferred from mammalian genome sequences. Genome Res. 17:16-22.
257. Ha, M., W.-H. Li and Z. J. Chen (2007) External factors accelerate expression

divergence between duplicate genes. Trends Genet. 23:162-166.

rules of biochemical networks in evolution. Evolutionary Bioinformatics 2: 27-39.

number of novel small open reading frames (sORFs) in the intergenic regions of the

17:632-640.

and microRNA target sites. Proc. Natl. Acad. Sci. USA. 104: 3300-3305.

of evolutionary distance. J. Theoret. Biol. 245:790 - 792.

exposed amino acids in a protein and rate of protein evolution. Mol. Biol. Evol.

24:1005-1011
263. Chen, C.C., W.-H. Li and H.M. Sung (2007) Patterns of internal gene duplication in

the course of metazoan evolution. Gene 396:59-65.
264. Shih, A. C.-C., T.-C. Hsiao, M.-S. Ho and W.-H. Li (2007) Simultaneous amino acid

substitutions at antigenic sites drive influenza A hemagglutinin evolution. Proc. Natl.

Acad. Sci. USA. 104: 6283-6288.
265. Liang, H. and W.-H. Li (2007) Gene essentiality, gene duplicability and protein

connectivity in human and mouse. Trends Genet. 23: 375-378.
266. Wang, D., H.-M. Sung, T.-Y. Wang, C.-J. Huang, P. Yang, T. Chang, Y.-C. Wang, D.-

L.Tseng, J.-P Wu, T.-S. Lee, M.-C. Shih and W.-H. Li (2007) Expression evolution in

yeast genes of single-input modules is mainly due to changes in trans-acting factors.

Genome Res. 17:1161-1169.

268. Wu, W-S, W.-H. Li, and B.-S. Chen (2007) Identifying regulatory targets of cell cycle

transcription factors using gene expression and ChIP-chip data. BMC Bioinformatics

8:188.

269. Liang, H. and W.-H. Li (2007) MicroRNA regulation of human protein-protein

interaction network. RNA 13:1402-1408.

270. Jiang, C., L. Han, B. Su, W.-H. Li, and Z. Zhao (2007) Features and trend of loss of

promoter-associated CpG islands in the human and mouse Genomes. Mol. Biol.

Evol. 24:1991-2000

271. Hanada, K., S.-H. Shiu, and W.-H. Li (2007) The nonsynonymous/synonymous

substitution rate ratio versus the radical/conservative replacement rate ratio in the

evolution of mammalian genes. Mol. Biol. Evol. 24:2235-2241

272. Lin Y.-C., L.-C. Hsieh, M.-W, Kuo, J.Yu, H.-H. Kuo, W.-L. Lo, R.-J. Lin, A.-L. Yu AL

and W.-H. Li (2007). Human TRIM71 and its nematode homologue are targets of let-

7 microRNA and its zebrafish orthologue is essential for development. Mol. Biol. Evol.

24:2525-2534.

273. Chen, B.-S., W.-S. Wu, Y.-C. Wang, and W.-H. Li (2007) On the robust circuit design

schemes of biochemical networks: Steady state approach. IEEE Transaction on

Biomedical Circuits and Systems. 1: 91-104.

274. Lin, LH, HC Lee, WH Li and BS Chen (2007) A systematic approach to detecting transcription factors in response to environmental stresses. BMC Bioinformatics 8:473 (13 pages). PMID: 18067669

275. Liang, C., W.-H. Li, and A. Fernandez (2008) Protein under-wrapping causes dosage sensitivity and decreases gene duplicability. PLoSGenetics, e11 (6 pages). PMID: 18208334

276. Prachumwat, A and W.-H. (2008) Gene number expansion and contraction in

vertebrate genomes with respect to invertebrate genomes. Genome Research 18:

221-232.

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