Faculty Guide

Title

Instructor in the Rabb School of Continuing Studies, Divison of Graduate Professional Studies.

Rabb School of Continuing Studies, Division of Graduate Professional Studies

Expertise

Computer-aided drug design.

Profile

Teaches RBIF-101G: Sequence and Structure Analysis. Works on computer-aided drug design at Amgen's research labs in Cambridge, MA.

Awards and Honors

Pfizer R&D Global Achievement Award (2004)

Eta Kappa Nu engineering honor society (1993)

Robert C. Byrd Congressional scholarship (1993)

Courses Taught

RBIF	101	Structural Bioinformatics
RBIF	110	Macromolecular Biophysics

Scholarship

Cee V.J., Cheng A.C., Romero K., Bellon S., Mohr C., Whittington D.A., Bak A, Bready J, Caenepeel S, Coxon A, Deak HL, Fretland J, Gu Y, Hodous BL, Huang X, Kim JL, Lin J, Long AM, Nguyen H, Olivieri PR, Patel VF, Wang L, Zhou Y, Hughes P, Geuns-Meyer S.. "Pyridyl-pyrimidine benzimidazole derivatives as potent, selective, and orally bioavailable inhibitors of Tie-2 kinase.." Bioorg Med Chem Lett. 19. (2009): 424-427.

Marx IE, DiMauro EF, Cheng A, Emkey R, Hitchcock SA, Huang L, Huang MY, Human J, Lee JH, Li X, Martin MW, White RD, Fremeau RT Jr, Patel VF.. "Discovery of alpha-amidosulfones as potent and selective agonists of CB2: synthesis, SAR, and pharmacokinetic properties.." Bioorg Med Chem Lett. 19. (2009): 31-35.

Patel S.D., Habeski W.M., Cheng A.C., de la Cruz E., Loh C., Kablaoui N.M.. "Quinazolin-4-piperidin-4-methyl sulfamide PC-1 inhibitors: Alleviating hERG interactions through structure based design.." Bioorg Med Chem Lett. (2009).

Stockman B.J., Kothe M., Kohls D., Weibley L., Connolly B.J., Sheils A.L., Cao Q., Cheng A.C., Yang L., Kamath A.V., Ding Y-H., Charlton M.E.. "Identification of allosteric PIF-pocket ligands for PDK1 using NMR-based fragment screening and 1H-15N TROSY experiments.." Chemical Biol & Drug Design 73. (2009): 179-188.

Cheng AC.. "Predicting selectivity and druggability in drug discovery.." Annual Reports Comp Chem. 4. (2008): 23-37.

Deak, H.L., Newcomb, J.R., Nunes, J.J., Boucher, C., Cheng, A.C., DiMauro, E.F., Epstein, L.F., Gallant, P., Hodous, B.L., Huang, X., Lee, J.H., Patel, V.F., Schneider, S., Turci, S.M., Zhu, X.. "N-(3-(phenylcarbamoyl)arylpyrimidine)-5-carboxamides as potent and selective inhibitors of Lck: structure, synthesis and SAR." Bioorg Med Chem Lett 18. 3 (2008): 1172-1176.

DiMauro EF, Buchanan JL, Cheng A, Emkey R, Hitchcock SA, Huang L, Huang MY, Janosky B, Lee JH, Li X, Martin MW, Tomlinson SA, White RD, Zheng XM, Patel VF, Fremeau RT Jr.. "Structural modifications of N-arylamide oxadiazoles: Identification of N-arylpiperidine oxadiazoles as potent and selective agonists of CB2.." Bioorg Med Chem Lett. 18. (2008): 4267-4274.

Cheng, A.C., Coleman, R.G., Smyth, K.T., Cao, Q., Soulard, P., Caffrey, D.R., Salzberg, A.C., Huang, E.S.. "Structure-based maximal affinity model predicts small-molecule druggability." Nature Biotech. 25. (2007): 71-75.

Dimauro, E.F., Newcomb, J,, Nunes, J.J., Bemis, J.E., Boucher, C., Buchanan, J.L., Buckner, W.H., Cheng, A., Faust, T., Hsieh, F., Huang, X., Lee, J.H., Marshall, T.L., Martin, M.W., McGowan, D.C., Schneider, S., Turci, S.M., White, R.D., Zhu, X.. "Discovery of 4-amino-5,6-biaryl-furo[2,3-d]pyrimidines as inhibitors of Lck: Development of an expedient and divergent synthetic route and preliminary SAR." Bioorg Med Chem Lett 17. (2007): 2305-2309.

Kothe, M., Kohls, D., Low, S., Coli, R., Cheng, A.C., Jacques, S.L., Johnson, T.L., Lewis, C., Loh, C., Nonomiya, J., Sheils, A.L., Verdries, K.A., Wynn, T.A., Kuhn, C., Ding, Y.H.. "Structure of the catalytic domain of human polo-like kinase 1." Biochemistry 46. (2007): 5960 -5971.

Armstrong, K.A., Tidor, B., and Cheng, A.C.. "Optimal charges in lead optimization: A structure-based neuraminidase case study." J Med Chem 49. (2006): 2470-2477.

Coleman, R.G., Salzberg, A.C., and Cheng, A.C.. "Structure-based identification of small molecule binding sites using a free energy model." J Chem Inf Model 46. (2006): 2631-2637.

Coleman, R.G., Burr, M.A., Souvaine, D.L., and Cheng, A.C.. "An intuitive approach to measuring protein surface curvature." Proteins 61. (2005): 1068-1074.

Cheng, A.C., and Frankel, A.D.. "Ab-initio interaction energies of amino acid side-chain hydrogen bond interactions with nucleic acid bases." J Am Chem Soc 126. (2004): 434-435.

Ryan G. Coleman, Michael Burr, Diane L. Souvaine, and Alan C. Cheng. Transformations and algorithms for least sum of squares hypersphere fitting.. Candadian Conference on Computational Geometry Proceedings, 2004.

Cheng, A.C., Chen, W.W., Fuhrmann, C.N., and Frankel, A.D.. "Recognition of nucleic acid bases and base-pairs by hydrogen bonding to amino acid side-chains." J Mol Biol 327. (2003): 781-796.

Walberer, B.J., Cheng, A.C., and Frankel, A.D.. "Structural diversity and isomorphism of hydrogen-bonded base interactions in nucleic acids." J Mol Biol 327. (2003): 767-780.

Cheng, A.. "Ab-initio Evidence for a Three-Hydrogen Bond Arginine-Wobble Interaction." 15th Gibbs Conference on Biothermodynamics, Carbondale, IL. 2001.

Cheng, A.C., Calabro, V., and Frankel, A.D.. "Design of RNA-binding proteins and ligands." Curr Opin Struct Biol 11. (2001): 478-484.

Cheng,Alan. "Hydrogen Bonds as a Specificity Determinant in Protein-RNA Interactions." 6th Annual RNA Society Meeting, Banff, Canada. 2001.

Cheng,Alan. "Strategies for Specific Recognition of RNA Using Hydrogen-Bonding." Biophysics, Tiburon, CA. University of California-San Francisco, Oct. 2001.

Cheng,Alan. "Hydrogen Bonds as a Specificity Determinant in Protein-RNA Interactions." Bay Area RNA Club. San Francisco