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Last Update: 2007.10.03 | Publications since 1993 (listed chronologically) Protein structure Sam V, Tai CH, Garnier J, Gibrat JF, Lee B, Munson PJ. ROC and confusion analysis of structure comparison methods identify the main causes of divergence from manual protein classification. BMC Bioinformatics. 7: 206, 2006. PubMed Abstract. Tai CH, Lee WJ, Vincent JJ, Lee B. Evaluation of domain prediction in CASP6. Proteins. 61 Suppl 7: 183-92, 2005. PubMed Abstract. Appendix and Supplementary Materials Vincent JJ, Tai CH, Sathyanarayana BK, Lee B. Assessment of CASP6 predictions for new and nearly new fold targets. Proteins. 61 Suppl 7: 67-83, 2005. PubMed Abstract. Tress M, Tai CH, Wang G, Ezkurdia I, Lopez G, Valencia A, Lee B, Dunbrack RL Jr. Domain definition and target classification for CASP6. Proteins. 61 Suppl 7: 8-18, 2005. PubMed Abstract. Goonesekere NC Lee B. Frequency of gaps observed in a structurally aligned protein pair database suggests a simple gap penalty function. Nucleic Acids Res. 32: 2838-43, 2004. PubMed Abstract Sharma S Sathyanarayana BK Bird JG Hoskins JR Lee B Wickner S. Plasmid P1 RepA is homologous to the F plasmid RepE class of initiators. J Biol Chem. 279: 6027-34, 2004. PubMed Abstract. Gomparative analysis of genes and genomes Hahn Y, Jeong S, Lee B. Inactivation of MOXD2 and S100A15A by Exon Deletion During Human Evolution. Mol Biol Evol. 2007. PubMed Abstract Hahn Y, Lee B. Human-specific nonsense mutations identified by genome sequence comparisons. Hum Genet. 119: 169-78, 2006. PubMed Abstract. Hahn Y, Lee B. Identification of nine human-specific frameshift mutations by comparative analysis of the human and the chimpanzee genome sequences. Bioinformatics. 21 Suppl 1: i186-i194, 2005. PubMed Abstract. Hahn Y Bera TK Gehlhaus K Kirsch IR Pastan IH Lee B. Finding fusion genes resulting from chromosome rearrangement by analyzing the expressed sequence databases. Proc Natl Acad Sci U S A. 101: 13257-61, 2004. PubMed Abstract. Gene discovery Das S, Hahn Y, Nagata S, Willingham MC, Bera TK, Lee B, Pastan I. NGEP, a prostate-specific plasma membrane protein that promotes the association of LNCaP cells. Cancer Res. 2007 Feb 15;67(4):1594-601. PubMed Abstract. Bera TK, Saint Fleur A, Lee Y, Kydd A, Hahn Y, Popescu NC, Zimonjic DB, Lee B, Pastan I. POTE paralogs are induced and differentially expressed in many cancers. Cancer Res. 66: 52-6, 2006. PubMed Abstract. Hahn Y, Bera TK, Pastan IH, Lee B. Duplication and extensive remodeling shaped POTE family genes encoding proteins containing ankyrin repeat and coiled coil domains. Gene. 366: 238-45, 2006. PubMed Abstract. Bera, T. K., Das, S., Maeda, H., Beers, H., Wolfgang, C. D., Kumar, Y., Hahn, Y., Lee, B., and Pastan, I.: NGEP, a gene encoding a membrane protein only detected in prostate cancer and normal prostate. Proc. Natl. Acad. Sci. USA 101:3059-3064, 2004. PubMed Abstract Immunotoxin Onda M, Nagata S, FitzGerald DJ, Beers R, Fisher RJ, Vincent JJ, Lee B, Nakamura M, Hwang J, Kreitman RJ, Hassan R, Pastan I. Characterization of the B cell epitopes associated with a truncated form of Pseudomonas exotoxin (PE38) used to make immunotoxins for the treatment of cancer patients. J Immunol. 2006 Dec 15;177(12):8822-34. PubMed Abstract. Nagata S Numata Y Onda M Ise T Hahn Y Lee B Pastan I. Rapid grouping of monoclonal antibodies based on their topographical epitopes by a label-free competitive immunoassay. J Immunol Methods. 292: 141-55, 2004. PubMed Abstract Onda M, Vincent JJ, Lee B, Pastan I. Mutants of immunotoxin anti-Tac(dsFv)-PE38 with variable number of lysine residues as candidates for site-specific chemical modification. 1. Properties of mutant molecules. Bioconjug Chem. 14: 480-7, 2003. PubMed Abstract Hydrophobicity Graziano G and Lee B. On the intactness of hydrogen bonds around nonpolar solutes dissolved in water. Journal of Physical Chemistry B. 109: 8103-8107, 2005. Graziano. G and Lee, B.: Entropy convergence in hydrophobic hydration: a scaled particle theory analysis. Biophys. Chem. 105:241-250, 2003. PubMed Abstract Graziano. G and Lee, B.: Hydration entropy change from the hard sphere model. Biophys. Chem. 101:173-185, 2002. PubMed Abstract | ||||
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