Articles in Scholarly Journals [Incomplete List]

1. Protein complexity, gene duplicability and gene dispensability in the yeast genome
   Gene, vol. 387, no. 1-2, pp. 109–117, 2007
2. Predicting disulfide connectivity patterns
   Proteins: Structure, Function, and Bioinformatics, vol. 67, no. 2, pp. 262–270, 2007
3. A simple way to compute protein dynamics without a mechanical model
   Proteins: Structure, Function, and Bioinformatics, vol. 68, no. 1, pp. 34–38, 2007
4. Proportion of Solvent-Exposed Amino Acids in a Protein and Rate of Protein Evolution
   Molecular Biology and Evolution, vol. 24, no. 4, pp. 1005–1011, 2007
5. pKNOT: the protein KNOT web server
   Nucleic Acids Research, vol. 35, no. Web Server, pp. W420–W424, 2007
6. KinasePhos 2.0: a web server for identifying protein kinase-specific phosphorylation sites based on sequences and coupling patterns
   Nucleic Acids Research, vol. 35, no. Web Server, pp. W588–W594, 2007
7. (PS)2: protein structure prediction server
   Nucleic Acids Research, vol. 34, no. Web Server, pp. W152–W157, 2006
8. Codon-usage bias versus gene conversion in the evolution of yeast duplicate genes
   Proceedings of the National Academy of Sciences, vol. 103, no. 39, pp. 14412–14416, 2006
9. Crystal Structure of Helicobacter pylori Formamidase AmiF Reveals a Cysteine-Glutamate-Lysine Catalytic Triad
   Journal of Biological Chemistry, vol. 282, no. 16, pp. 12220–12229, 2006
10. Molecular dynamics simulation of the enhancement of cobra cardiotoxin and E6 protein binding on mixed self-assembled monolayer molecules
    Nanotechnology, vol. 17, no. 4, pp. S8–S13, 2006
11. Journal of the American Chemical Society, vol. 128, no. 43, pp. 13980–13981, 2006
12. Structure–Stability–Activity Relationship in Covalently Cross-linked N-Carbamoyl d-Amino acid Amidohydrolase and N-Acylamino acid Racemase
    Journal of Molecular Biology, vol. 359, no. 3, pp. 741–753, 2006
13. The fragment transformation method to detect the protein structural motifs
    Proteins: Structure, Function, and Bioinformatics, vol. 63, no. 3, pp. 636–643, 2006
14. Prediction of protein subcellular localization
    Proteins: Structure, Function, and Bioinformatics, vol. 64, no. 3, pp. 643–651, 2006
15. Amino acid coupling patterns in thermophilic proteins
    Proteins: Structure, Function, and Bioinformatics, vol. 59, no. 1, pp. 58–63, 2005
16. Computation of conformational entropy from protein sequences using the machine-learning method—Application to the study of the relationship between structural conservation and local structural stability
    Proteins: Structure, Function, and Bioinformatics, vol. 59, no. 4, pp. 802–809, 2005
17. Prediction of disulfide connectivity from protein sequences
    Proteins: Structure, Function, and Bioinformatics, vol. 61, no. 3, pp. 507–512, 2005
18. Reassessment of morphological characteristics in freshwater eels (genus Anguilla, Anguillidae) shows congruence with molecular phylogeny estimates
    Zoologica Scripta, vol. 34, no. 3, pp. 225–234, 2005
19. Predicting subcellular localization of proteins for Gram-negative bacteria by support vector machines based on n-peptide compositions
    Protein Science, vol. 13, no. 5, pp. 1402–1406, 2004
20. Prediction of the bonding states of cysteines Using the support vector machines based on multiple feature vectors and cysteine state sequences
    Proteins: Structure, Function, and Bioinformatics, vol. 55, no. 4, pp. 1036–1042, 2004
21. Relationship between local structural entropy and protein thermostabilty
    Proteins: Structure, Function, and Bioinformatics, vol. 57, no. 4, pp. 684–691, 2004
22. Journal of Chemical Information and Computer Sciences, vol. 44, no. 2, pp. 635–642, 2004
23. Computing motif correlations in proteins
    Journal of Computational Chemistry, vol. 24, no. 16, pp. 2032–2043, 2003
24. Fine-grained protein fold assignment by support vector machines using generalizednpeptide coding schemes and jury voting from multiple-parameter sets
    Proteins: Structure, Function, and Genetics, vol. 50, no. 4, pp. 531–536, 2003
25. Relationship between protein structures and disulfide-bonding patterns
    Proteins: Structure, Function, and Bioinformatics, vol. 53, no. 1, pp. 1–5, 2003
26. GEM: A Gaussian evolutionary method for predicting protein side-chain conformations
    Protein Science, vol. 11, no. 8, pp. 1897–1907, 2002
27. Calcium binding mode of  -carboxyglutamic acids in conantokins
    Protein Engineering Design and Selection, vol. 12, no. 7, pp. 589–595, 1999
28. Analysis of Binding of Cobra Cardiotoxins to Heparin Reveals a New beta -Sheet Heparin-binding Structural Motif
    Journal of Biological Chemistry, vol. 272, no. 15, pp. 9661–9670, 1997
29. On the relationship between the dispersed polaron and spin-boson models
    Chemical Physics Letters, vol. 271, no. 4-6, pp. 223–225, 1997
30. Journal of the American Chemical Society, vol. 118, no. 47, pp. 11745–11751, 1996
31. The Journal of Physical Chemistry, vol. 100, no. 2, pp. 909–912, 1996
32. Journal of Physical Chemistry, vol. 97, no. 39, pp. 10053–10058, 1993
33. Computer simulations of enzymatic reactions: examination of linear free-energy relationships and quantum-mechanical corrections in the initial proton-transfer step of carbonic anhydrase
    Faraday Discussions, vol. 93, p. 225, 1992
34. Journal of Physical Chemistry, vol. 95, no. 22, pp. 8445–8448, 1991
35. Biochemistry, vol. 28, no. 9, pp. 3629–3637, 1989
36. Biochemistry, vol. 27, no. 2, pp. 774–781, 1988
37. Evaluation of catalytic free energies in genetically modified proteins*1
    Journal of Molecular Biology, vol. 201, no. 1, pp. 139–159, 1988
38. Journal of the American Chemical Society, vol. 110, no. 16, pp. 5297–5311, 1988
39. Why ion pair reversal by protein engineering is unlikely to succeed
    Nature, vol. 334, no. 6179, Article ID 334270a0, 2 pages, 1988
40. Journal of the American Chemical Society, vol. 109, no. 3, pp. 715–720, 1987
41. Biochemistry, vol. 26, no. 10, pp. 2669–2673, 1987