Jianwen Fang, Ph.D

Present Position

Education

Professional Certificates

Publications

2008

46. Matthew R. Tubb, R. A. Gangani D. Silva, Jianwen Fang, Patrick Tso, and W. Sean Davidson. A three-dimensional homology model of lipid-free apolipoprotein A-IV using cross-linking and mass spectrometry. J. Biol. Chem. Accepted.
45. Chen. D.C.; Fang, J.W.; Yu, J.W. "Predicting Blood-Brain Barrier Penetration by Stochastic Discrimination". The International Conference on BioMedical Engineering and Informatics (BMEI2008). Accepted.
44. Li, Q.-S.; Cai, S.; Fang, J.W.; Borchardt, R.T; Kuczera, K.; Middaugh, C.R.; and Schowen, R.L. "Comparative kinetics of cofactor association and dissociation for the human and trypanosomal S-adenosylhomocysteine hydrolases. 2. The role of helix 18 stability". Biochemistry. Accepted.
43. Fang, J. W.; Dong Y.H.; Williams, T.D.; Lushington G.H. "Feature selection in validating mass spectrometry database search results". Journal of Bioinformatics and Computational Biology. 6(1), 2008, 223-240.
42. Theerthama B.; L. Wang J.L.; Fang J.W.; and Lushington G.H. "Novel algorithms for the identification of biologically informative chemical diversity metrics". Current Computer-Aided Drug Design. Accepted.
41. Fang J.W.; Dong Y.H.; Salamat-miller N.; Middaugh C.R. DB-PABP: a database of polyanion-binding proteins. Nucleic Acids Research 36(Database-Issue): 303-306, 2008.
40. Chen, X.W.; Han, B.; Fang, J.W.; Haasl, R.J. A new kernel method for large-scale protein-protein interaction prediction. Int. J. Data Mining and Bioinformatics. Accepted.
39. Hu, C.; Fang, J.W.; Borchardt, R.T.; Schowen, R.L.; Kuczera, K. Molecular dynamics simulations of domain motions of substrate-free S-Adenosyl-L-homocysteine hydrolase in solution. PROTEINS: Structure, Function, and Bioinformatics. 71(1), 131-143, 2008.

2007

38. Fang, J.W.; Grzymala-Busse, J.W. "Predicting Penetration Across the Blood-Brain Barrier - a Rough Set Approach". Proceedings of 2007 IEEE International Conference on Granular Computing, IEEE Computer Society Press, pp. 231-236.
37. Sang Y, Teresa Ortega M, Rune K, Xiau W, Zhang G, Soulages JL, Lushington GH, Fang J.W., Williams TD, Blecha F, Melgarejo T. Canine cathelicidin (K9CATH): Gene cloning, expression, and biochemical activity of a novel pro-myeloid antimicrobial peptide. Dev Comp Immunol. 2007 Apr 16; [Epub ahead of print]
36. Wickstrum J.R.; Skredenske J.M.; Kolin A.; Jin D.J.; Fang, J.W.; Egan S.M. Transcription Activation by the DNA-Binding Domain of the AraC Family Protein RhaS in the Absence of its Effector-Binding Domain. Journal of Bacteriology. 189, 14, 4984-4993, 2007.
35. Fang, J. W.; Grzymala-Busse, J. W. “Mining Mass Spectrometry Database Search Results—A Rough Set Approach.” RSEISP 2007, LNAI 4585, pp. 340–349.
34. Fang J.W.; Salamat-miller N.; Dong Y.H.; Middaugh C.R. Prediction of Polyanion Binding Potential in Proteins Using Random Forest. Proceedings of BIOCOMP07, 427-431, June 25-28, 2007.
33. Hanzlik RP, Koen TM, Theertham B, Dong YH, and Fang J.W. The Reactive Metabolite Target Protein Database - A Web-Accessible Resource. BMC Bioinformatics. 2007, 8:95.
32. Li, Q.-S.; Cai, S.; Borchardt, R.T; Fang, J.W.; Kuczera, K.; Middaugh, C.R.; and Schowen, R.L. Comparative kinetics of cofactor association and dissociation for the human and trypanosomal S-adenosylhomocysteine hydrolases. 1. Basic features of the association and dissociation processes. Biochemistry, 46 (19), 5798 -5809, 2007.
31. Salamat-Miller, N.; Fang, J.W.; Seidel, C.; Smalter, A.; Assenov, Y.; Albrechat, M.; Middaugh, C.R. A Network-Based Analysis of Polyanion Binding Proteins Utilizing Human Protein Arrays. J. Biol. Chem. 282, 14, 10153-10163, 2007.
30. Suprenant, K.A.; Nathan Bloom1, N.; Fang, J.W.; Lushington, G.H. The Major Vault Protein is Related to the Toxic Anion Resistance Protein (TELA) Family. J. Exp. Biol. 210, 946-955, 2007.

2006

29 . Salamat-Miller, N. S.; Fang, J. W.; Seidel, C.; Smalter, A.; Assenov, Y.; Albrecht, M.; Middaugh1, C. R. A Network-Based Analysis of Polyanion Binding Proteins Utilizing Yeast Protein Arrays. Molecular and Cellular Proteomics, 5, 12, 2263-2278, 2006.
28. Fang, J. W.; Grzymala-Busse, J. W. “Leukemia Prediction from Gene Expression Data: A Rough Set Approach.” Lecture Notes in Computer Science: 4062, 758-765, 2006.
27. Fang, J. W.; Grzymala-Busse, J. W. “Mining of MicroRNA Expression Data: A Rough Set Approach.” Lecture Notes in Computer Science: 4029, 899-908, 2006.
26. Fang, J. W.; Dong, Y. H.; Lushington, G. H.; Ye, Q. Z.; Georg, G. I. “Support Vector Machines in HTS Data Mining: Type I MetAPs Inhibition Study.” Journal of Biomolecular Screening 11 (2): 138-144, 2006.
25. Haasl, R. J.; Fang, J. W. “Mining protein-protein interaction data.” Current Bioinformatics 1, 2: 197-205, 2006. (invited review)

2005 and older

24. Fang, J. W.; Haasl, R. J.; Dong, Y. H.; Lushington, G. H. "Discover protein sequence signatures from protein-protein interaction data" BMC Bioinformatics 6: 277, 2005.
23. R. A. Gangani D. Silva, George M. Hilliard, Jianwen Fang, Stephen Macha and W. Sean Davidson. "A Three Dimensional Molecular Model of Lipid-free Apolipoprotein A-I Determined by Cross-linking/Mass Spectrometry and Sequence Threading", Biochemistry, 2005, 44: 2759-2769..
22. Marchin, M,, Kelly, P.T. and Fang, J.W.; "Tracker: continuous HMMER and BLAST searching" Bioinformatics, 2005, 21, 388-389.
21. Chen, X.W., Fang, J.W., Wang, X.K.; “Discovering Transcription Factor Binding Sites in the Yeast Saccharomyces Cerevisiae?Currents in Computational Molecular Biology 2004, 461.
20. Ram J.L., Ritchie R.P., Fang J.W., Gonzales F.S., Selegean J.P.; “Sequence-based source tracking of Escherichia coli based on genetic diversity of beta-glucuronidase?JOURNAL OF ENVIRONMENTAL QUALITY 2004, 33, 1024-1032.
19. Xian M., Fatima Z., Zhang W., Fang J.W., Li H.F., Pei D.H., Loo J., Stevenson T., Wang P.G.; “Identification of alpha-galactosyl epitope mimetics through rapid generation and screening of C-linked glycopeptide library? JOURNAL OF COMBINATORIAL CHEMISTRY, 2004, 6, 126-134.
18. Wang J.Q., Zhang B.Y., Fang J.W., Sujino K, Li H, Otter A, Hindsgaul O, Palcic MM, Wang P.G.; “Frontal affinity chromatography coupled to mass spectrometry: An effective method for K-d determination and screening of alpha-gal derivatives binding to anti-Gal antibodies (IgG)?JOURNAL OF CARBOHYDRATE CHEMISTRY 2003, 22, 347-376.
17. Zhang, J.B.; Kowal, P.; Fang, J.W.; Andreana P.; Wang, P.G.; "Efficient chemoenzymatic synthesis of globotriose and its derivatives with a recombinant -(14)-galactosyltransferase" Carbohydrate Research 2002, 337, 969-976.
16. Chen, X.; Fang, J.-W.; Zhang, J.; Liu, Z.-Y.; Andreana, P.; Kowal, P.; Wang, P. G. "Sugar nucleotide regeneration beads (superbeads): a versatile tool for practical synthesis of oligosaccharides" J. Am. Chem. Soc. 2001, 123, 2081-2082.
15. Fang, J.-W.; Wang, P.G. “Synthesis of alpha Galactosyl Epitope Derivatives Using a Fusion Enzyme?Carbohydrate Research, 2000, 329, 873-878.
14. Chen, X.; Zhang, W.; Wang, J.-Q.; Fang, J.-W.; Wang, P. G. "Production of a-Galatosyl epitopes via combined use of two recombinant whole cells harboring UDP-galactose 4-epimerase and a1,3galactosyltransferase" Biotech. Progress 2000, 16, 595-599.
13. Chen, X; Liu, Z; Wang, J.; Fang, J.-W., Fan, H., Wang P. G. “Changing the donor cofactor bovine alpha 1,3-galactosyltransferase by fusion with UDP-galactose 4-epimerase - More efficient biocatalysis for synthesis of alpha-Gal epitopes?J. Biol. Chem., 2000, 275, 31594-31600.
12. Wang, J.-Q., Zhang, B.-Y., Fang, J.-W., Zhang W, Sujino K, Janczuk A, Qian XP, Chen X, Hindsgaul O, Palcic M, Wang P. G. “Human anti-Gal antibody affinity chromatography with mass spectrometric detection: An efficient method for screening a-Gal derivatives.?BIOCHEMISTRY-US, 2000, 39, 156.
11. Xie, W.-H.; Fang, J.-W.; Li, J.; Wang, P. G. “Lanthanide Triflates Catalyzed Reactions of Imines with Ethyl Diazoacetate: Formation of Aziridines in Protic Media?Tetrahedron 1999, 55, 12929-12938.
10. Zhang, W.; Xie, W.-H.; Fang, J.-W.; Wang, P. G. “Ytterbium (III) Trifluoromethanesulfonate Catalyzed Solid Phase Aza Diels-Alder Reaction and Subsequent Facile Adduct Release?Tetrahedron Lett. 1999, 55, 12929-12938.
9. Fang, J.-W.; Chen, X.; Zhang, W.; Wang, P. G. "Chemoenzymatic Synthesis of alpha-Gal Epitope Derivatives Containing Free Amino Groups: Efficient Separation and Further Manipulation" J. Org. Chem. 1999, 64, 4089-4094.
8. Zhang, W.; Xie, W.; Fang, J.-W.; Wang, P. G. "Recent Progresses in Glycochemistry and Green Chemistry" Current Org. Chem. 1999, 3, 241-267.
7. Janczuk, A.; Li,, J.; Zhang, W.; Chen, X.; Chen, Y., Fang, J.-W., Wang, J.; Wang, P. G. "alpha-Gal Oligosaccharides: Chemistry and Potential Biomedical Application" Current Medicinal Chem. 1999, 6, 155.
6. Li, J.; Ksebati, M. B.; Zhang, W.; Guo, Z.; Wang, J.; Yu, L.; Fang, J.-W.; Wang, P. G. "Conformational Analysis of Alpha Galactosyl Epitopes Involved in the Hyperacute Rejection upon Xenotransplantation" Carbohydr. Res. 1999, 315, 76-88.
5. Fang, J.-W.; Li, J.; Chen, X.; Zhang, Y.; Wang, J.; Guo, Z.; Brew, K.; Wang, P. G. "A Highly Efficient Chemo-Enzymatic Synthesis of alpha-Galactosyl Epitopes with a Recombinant 1,3-Galactosyltransferase" J. Am. Chem. Soc. 1998 120, 6635-6638.
4. Fang, J.-W.; Xie, W.; Li, J.; Wang, P. G. "Chemical and Enzymatic Synthesis of Glycoconjugates 3: Synthesis of Lactosamine by Thermophilic Galactosidase Catalyzed Galactosylation on a Multigram Scale" Tetrahedron Lett. 1998, 39, 919.
3. Fang, J.-W.; Li, Z.-Y. "Chemo-Enzymatic Synthesis of a Four-Chiral-Center Portion of A-23187 (calsimycin)" Chinese Chem. Lett., 1997, 8, 111.
2. Ward, O. P.; Fang, J.-W.; Li, Z.-Y. "Lipase-Catalyzed Synthesis of a Sugar Ester Containing Arechidonic Acid" Enzyme Microb. Tech., 1997, 20, 52.
1. Fang, J.-W.; Li, Z.-Y. "Lipase-Catalyzed Double Kinetic Resolution of dl-2,4-Dimethyl-1,5-pentanediol: A Useful Synthon in Natural Product Synthesis" Chinese Chem. Lett., 1997, 7, 129.