DEPARTMENT CHAIR:                   JAMES GLIMM
GRADUATE PROGRAM DIRECTOR: DAVID GREEN

Balius, Trent E. (2010).  National Research Service Award, $31,121. National Cancer Institute, National Institutes of Health, Bethesda, MD.

Carrascal, Noel. (2010).  FASEB MARC Program Travel Award. $1,850. Federation of American Societies for Experimental Biology. Bethesda, MD.

Carrascal, Noel. (2011).  NYSBDG Poster Award. $100. New York Structural Biology Discussion Group, New York, NY.

Mukherjee, Sudipto (2011).  Chemical Computing Group Excellence Award, $1,150. Computers in Chemistry Division, American Chemical Society, Washington, DC.

Patsalo, Vadim (2010).  Best Poster Award. $350, 24th Annual Symposium of the Protein Society, San Diego, CA

Chen, Paichuan. (2011).  Extending the quandt Ramsey modeling to survival analysis: Finding the MLE of the mixture of two exponential survival functions.   Colne, Germany. LAP Lambert Academic Publishing.

Balius, T.E., Mukherjee S., Sand Rizzo, R.C. (2011).   Implementation and evaluation of a docking-rescoring method using molecular footprint comparisons. Journal of Computational Chemistry,  32(10).

Greenberg, T., Rubin, D and Mujica-Parodi, L.R. (2010).  Feeling anxious: Anticipatory amygdalo-insular response predicts the feeling of anxious anticipation.  Social Cognitive Affective Neuroscience,  DOI: 10.1093/scan/nsq01.
Chen, J.J., Zhang, G.X., Chen, J., & Steinhardt G.F. (2011).  Simple moment-based inferences of generalized concordance correlation. Journal of Applied Statistics, DOI:
10.1080/02664763.2010.529884.

Duan, C.J., Liang, Z.R., Bao, S.L., Zhu, H.B., Wang, S., Zhang, G.X., Chen, J.J., & Lu, H.B. (2010) .  A Coupled level set framework for bladder wall segmentation with application to MR cyptography. IEEE Transactions on Medical Imaging, 29(3): 903-915.

Fekete, T., Rubin, D, Carlson, J.M. and Mujica-Parodi, L.R. (2011).  A stand-alone method for anatomical localization of NIRS measurements.  Neuroimage, 56(4):2080-8.

Kaman, T., Glimm, J. and Sharp, D.H. (2010).   Initial conditions for turbulent mixing simulations, Condensed Matter Physics, 13(4): 43401.

Laxmi, Y.R., Liu, X., Suzuki, N., Kim, S.Y., Okamoto, K., Kim, H.J., Zhang, G.X., Chen, J.J., Okamoto, Y., & Shibutani, S. (2010).  Anti-breast cancer potential of SS1020, a novel antiestrogen lacking estrogenic and genotoxic actions. International Journal of Cancer, 127(7): 1718-26.

Lee, H Malaspina, D., Ahn, H., Perrin, M., Opler, M. G., Kleinhaus, K., Harlap, S., Goetz, R. and Antonius, D. (2011). Paternal age related Schizophrenia (PARS): Latent Subgroups Detected by K-Means Clustering Analysis. Schizophrenia Research, (128): 143-149.

Lim, H., Iwerks, J., Yu, Y., Glimm, J. and Sharp, D.H. (2010).  Verification and validation of a method for the simulation of turbulent mixing. Physica Scripta, (T142): 014014.

Mukherjee, S., Balius, T.E. and Rizzo, R.C. (2010).  Docking validation resources: Protein family and ligand flexibility experiments. Journal of Chemical Information and Modeling, 50 (11): 1986-2000.

A., Rubin, D, Strey, H.H. and Mujica-Parodi, L.R. (2011).  Power spectrum scale invariance identifies prefrontal-limbic dysregulation in paranoid schizophrenia.  Human Brain Mapping, DOI: 10.1002/hbm.21309. 

Rubin, D, Botanov, Y., Hajcak, G. and Mujica-Parodi, L.R. (2011). Second-hand stress:  Inhalation of stress sweat enhances neural response to neutral faces.  Social Cognitive Affective Neuroscience, DOI: 10.1093/scan/nsq09.

Suzuki, N., Liu, X., Laxmi, Y.R., Okamoto, K., Kim, H.J., Zhang, G.X., Chen, J.J., Okamoto, Y., & Shibutani, S. (2011).  Anti-breast Cancer Potential of SS5020, a Novel Benzopyran Antiestrogen. International Journal of Cancer, 128(4): 974–982.

Tolkunov, D., Rubin, D  and Mujica-Parodi, L.R. (2010).  Power spectrum scale invariance quantifies limbic dysregulation in trait anxious adults using fMRI:  adapting methods optimized for characterizing autonomic dysregulation to neural dynamic timeseries. Neuroimage, 50(1):72-80.

Feinberg, E.A. and Yang, F. (2010).  Optimal admission for a queue with several types of customers and holding costs, in A.B. Piunovskiy (Ed.), Modern Trends in Controlled Stochastic Processes: Theory and Applications, Luniver Press, UK.

Iwerks, J and Mitchell, J.S.B. (2011).  Spiral serpentine polygonization of a planar point set. XIV Spanish Meeting on Computational Geometry, (181-184).

Biedl, T., Irfan, M T., Iwerks, J, Kim, J. and Mitchell, J.S.B. (2011).   Guarding polyominoes. 27th Annual Symposium on Computational Geometry, (387-396).

Au, L. and Green, D.F. (2011).  Understanding mutability of highly conserved residues in multiple fitness contexts. New York Structural Biology Discussion Group Sixth Winter Meeting, New York, NY.

Au, L. and Green, D.F. (2011).  Understanding mutability of highly conserved residues in multiple fitness contexts. New York Theoretical and Computational Chemistry Conference, New York, NY.

Au, L. and Green, D.F. (2010).  Understanding mutability of highly conserved residues in multiple fitness contexts. Biological Design: Fourth Annual Advances in Biomolecular Engineering Symposium. New York, NY.

Au, Land Green, D.F. (2010).  A computational protocol for quantifying interaction specificity between protein families. 24th Annual Symposium of the Protein Society, San Diego, CA.

Balius, T.E., Mukherjee, S., Rizzo, R.C. (2010).  Molecular interaction footprints: A docking rescoring method. 240th American Chemical Society National Meeting & Exposition, Boston, MA.
 
Balius, T., Mukherjee, S., Rizzo R.C. (2011).  Development and application of footprint similarity scoring as a docking and virtual screening tool. 241th American Chemical Society National Meeting & Exposition, Anaheim, CA.
 
Carrascal, N and Green, D.F. (2011). Computational models provide insights into heterotrimeric G-protein function. 24th Annual Symposium of the Protein Society, San Diego, CA.

Carrascal, N and Green, D.F. (2011). Dissecting heterotrimeric G-protein function with energetic component analysis. New York Theoretical and Computational Chemistry Conference, New York, NY.

Carrascal N. and Green, D.F. (2011). Dissecting heterotrimeric G-protein function with energetic component analysis. New York Structural Biology Discussion Group, New York, NY.

Feinberg, E.A. and Yang, F.  (2010).  Optimal Admission to M/M/k/N Queues with Several Customer Types and Holding Costs. INFORMS Annual Meeting, Austin, TX.

Hu, Yijing. (2011).  Front Tracking Method on Precipitation with Subsurface Flow. SIAM Conference on Computational Science & Engineering, Reno, NV.

Jiang, L.L. and Rizzo, R. C. (2011).  Binding affinity prediction for HIVgp41 inhibitors using thermodynamic integration molecular dynamics simulations. CRA-W Grad Cohort Workshop, Boston, MA.

Jiang, T. and Green, D.F. (2010).  Qualitative and quantitative diversity in heterotrimeric G-protein signaling. Biological Design: 4th  Annual Advances in Biomolecular Engineering Symposium, New York, NY.

Jiang, T. and Green, D.F. (2011).  Qualitative and quantitative diversity in heterotrimeric G-protein signaling. New York Theoretical & Computational Chemistry Conference, New York, NY.

Iwerks, Justin. (2011).  Guarding polyominoes. UICP, Paris, France.

Kaman, T., Lim, H., Glimm, J. and Sharp, D.H. (2011).  Rayleigh-Taylor turbulent mixing simulations. SIAM Conference on Computational Science & Engineering, Reno, NV.

Kim, Joung-Dong. (2011).  Front tracking method on fluid structure interaction. SIAM SIAM Conference on Computational Science & Engineering, Reno, NV.

Mo, Y., Xing, H., Liao, W and Zhang, M.Q. (2011).  A novel Bayesian change-point (BCP) model for better ChIP-seq data analyses. High-Throughput Biology, Suzhou, People’s Republic of China.

Mo, Y., Xing, H., Liao, W and Zhang, M.Q. (2011).  A novel Bayesian change-point (BCP) model for better ChIP-seq data analyses. The Biology of Genomes, Cold Spring Harbor, NY.

Mukherjee, S., Balius, T.E. and Rizzo, R.C. (2010).  Pose accuracy using DOCK: Database construction and protocol evaluation. 240th American Chemical Society National Meeting & Exposition, Boston, MA.

Mukherjee, S., Balius, T.E. and Rizzo, R.C. (2011).  Algorithmic improvement and development for DOCK6.4. 241th American Chemical Society National Meeting & Exposition, Anaheim, CA.

Mukherjee, S., Balius, T.E. and Rizzo, R.C. (2011).  Development of the SB2010 testset to evaluate docking. 241th American Chemical Society National Meeting & Exposition, Anaheim, CA.

Lihm, Jayon. (2010).  Comparison of rare variants tests. Genetic Analysis Workship 17, Cambridge, MA.

Patsalo, V., Raleigh, D.P. and Green, D.F. (2010).  Stabilization of cyanovirin-N, a potent HIV-inhibiting lectin. 24th Annual Symposium of the Protein Society, San Diego, CA.

Patsalo, V., Raleigh, D.P. and Green, D.F. (2011).  Design of a modular lectin scaffold for combinatorial screening against heterogeneous glycan targets. Gordon Carbohydrates Conference, Waterville, ME.

Wei, H. and Samulyak, R. (2011).  Mesoscale models and numerical algorithms for fracture of solids, ASME Applied Mechanics and Materials Conference, Chicago, IL.

Zhang, G.X. & Chen, J.J. (2010).  Adaptive fitting of linear mixed-effects models with correlated random-effects. Joint Statistical Meetings, Vancouver, BC, Canada.

Zhang, G.X. & Chen, J.J. (2010).  Adaptive fitting of linear mixed-effects models with “correlated” random-effects. The 19th Annual ICSA 2010 Applied Statistics Symposium, Indianapolis, IN.

Feinberg, E.A. and Curry, M., (Issued 12/2010). Frequency Based Methods for Scheduling Jobs with Hard Constraints, Patent Number 7856369.

Xiaoxuan Zhang. (2011).  Post Doctoral Fellow, Mathematical Center, IBM Watson Research Center, Yorktown Heights, NY

Wu, Jie (2010).  SpliceTrap. Alternative Splicing Quantification from RNA-seq Data. Cold Spring Harbor, NY.