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Group Alumni

  Bambang S Adiwijaya
Ph.D. 2006
Chemical Engineering
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Simulation and Optimization Tools to Study Design Principles of Biological Networks
  Alexander Akhiezer
Ph.D. 2002
Chemistry
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Theoretical and Experimental Studies of Small Molecule Ligands
  Michael D Altman
Ph.D. 2006
Chemistry
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Computational Ligand Design and Analysis in Protein Complexes Using Inverse Methods, Combinatorial Search, and Accurate Solvation Modeling
  Josh Apgar
Ph.D. 2009
Biological Engingeering
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Experiment Design for Systems Biology
  Kathryn Armstrong
Ph.D. 2007
Biological Engingeering
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Computational Structure-based Modeling and Analysis with Application to Rational and Evolutionary Molecular Engineering
  Neha Bahl
Ph.D.
Singapore-MIT Alliance
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  Jay Bardhan
Ph.D. 2006
Electrical Engineering and Computer Science
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Efficient Numerical Algorithms for Surface Formulations of Mathematical Models for Biomolecule Analysis and Design
  Mark Bathe
Ph.D. 2004
Mechanical Engineering
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Inverse Monte Carlo simulation of biomolecular conformation and coarse-grained molecular modeling of chondroitin sulfate conformation, titration, and osmotic pressure
  Caitlin Bever
Ph.D. 2008
Biological Engingeering
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Selecting high-confidence predictions from ordinary differential equation models of biological networks
  Jason Biddle
Ph.D.2010
Computation for Design and Optimization
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Methods and Applications in Computational Protein Design
  Justin A Caravella
Ph.D. 2002
Chemistry
Electrostatic and Packing in Biomolecules: Accounting for Conformational Change in Protein Folding and Binding
  Lillian T Chong
B.S. 1996
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  Jesse Cochrane
Technical Assistant
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  Justin Cohen
UROP
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  Yuanyuan Cui
January 2013
Computational and Systems Biology
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Computational Modeling Techniques for Biological Network Productivity Increases: Optimization and Rate-limiting Reaction Detection
  Filipe Gracio

MIT Portugal Program
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  David F Green
Ph.D. 2002
Chemistry
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Optimization of Electrostatic Binding Free Energy: Application to the Analysis and Design of Ligand Binding in Protein Complexes
  Sarah "Sally" Guthrie

UROP, Course 6-7
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  David R Hagen
Ph.D. 2014
Biological Engineering
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  Bucong Han

Singapore-MIT Alliance
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  Karl JM Hanf
Ph.D. 2002
Physics
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Protein Design with Hierarchical Treatment of Solvation and Electrostatics
  Zachary S Hendsch
Ph.D. 2001
Chemistry
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Continuum Electrostatic Calculations of Biological Macromolecules
  Andrew D. Horning
Ph.D. 2015
Chemistry
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A Computational Approach to Spectroscopy of Molecular Systems: Modeling, Prediction, and Design
  Lu Huang

Singapore-MIT Alliance
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  David J Huggins
Postdoctoral Researcher
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  Cristina Jarque Uribe
Postdoctoral Researcher
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  Brian A Joughin
Ph.D. 2007
Biology
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Novel Methods in Computational Analysis and Design of Protein-Protein Interactions: Applications to Phosphoregulated Interactions
  Dan Kamei
Postdoctoral Researcher
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  Erik Kangas
Ph.D. 2000
Physics
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Optimizing Molecular Electrostatic Interactions: Binding Affinity and Specificity
  Amy Keating
Postdoctoral Researcher
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  Bo Kim
Ph.D. 2010
Electrical Engineering and
Computer Science
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Robust Network Calibration and Therapy Design in Systems Biology
  Philip Mjong-Hyon S Kim
Ph.D. 2003
Chemistry
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Understanding Subsystems in Biology through Dimensionality Reduction, Graph Partitioning and Analytical Modeling
  S Roy Kimura
Postdoctoral Researcher
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Specificity in Catalytic Antibodies
  Bracken M King
Ph.D. 2010
Biological Engingeering
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Analysis of Biological and Chemical Systems Using Information Theoretic Approximations
  Gil Kwak
M.Sc. 2011
Computation for Design and Optimization
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  Lee-Peng Lee
Ph.D. 1999
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Optimization of Electrostatic Binding Free Energy: Application to Barnase and Barstar
  Peter Lee
Technical Assistant
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  Shaun M Lippow
Ph.D. 2007
Chemical Engineering
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Computational Analysis, Design, and Experimental Validation of Antibody Binding Affinity Improvements Beyond In Vivo Maturation
  Yujing Liu

Singapore-MIT Alliance
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  Michael de la Maza
B.S.
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  Geronimo Mirano

UROP, Course 6-7
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  Robert L Murray
M.Sc. 1996
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Continuum Electrostatic Analysis of DNA Bending
  Adrian Orozco

SuperUROP / Course 6
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  Nirmala Paudel

Biological Engineering
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  Mala L Radhakrishnan
Ph.D. 2007
Chemistry
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Tackling the Bigger Picture in Computational Drug Design: Theory, Methods, and Application to HIV-1 Protease and Erythropoietin Systems
  Devan Raghunathan
Postdoc 2012
Postdoctoral Researcher, Singapore-MIT Alliance
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  Alessandro Senes
Postdoctoral Researcher
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  Jason Sharma
M.Eng. 2002
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Developement of Self-Learning Algorithms for Cancer Detection
  Yang Shen
Postdoc 2011
Postdoctoral Researcher
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  Brian Woody Sherman
Ph.D. 2004
Chemistry
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Biomolecular Ligand Design: Enhancing Binding Affinity and Specificity Utilizing Electrostatic Charge Optimization and Packing Techniques
  Nate Silver
Ph.D. Ph.D. 2011
Chemistry
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Ensemble Methods in Computational Protein and Ligand Design: Applications to the Fcr Immunoglobulin, HIV-1 Protease, and Ketol-acid Reductoisomerase Systems
  Eric J Simon
Ph.D. 1996
Harvard
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A Molecular Dynamics Study of a Mutation in a Bacteriophage 434 Operator/Repressor Complex
  Charles V Sindelar
B.S. 1994
Technical Assistant
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  Christopher D Snow
B.S. 2001
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  Shari Spector
Postdoctoral Researcher
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  Kelly M Thayer

Postdoctoral Researcher
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  Jared E Toettcher
Ph.D. 2009
Biological Engingeering
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Relating topology and dynamics in cell signaling networks
  Tina Toni
Postdoc 2012
Wellcome Trust-MIT Postdoctoral Fellow
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  Lisa Tucker-Kellogg
Ph.D. 2002
Electrical Engineering and Computer Science
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Systematic Conformational Search with Constraint Satisfaction
  Cheuk-san Edward Wang
Ph.D. 2000
Electrical Engineering and Computer Science
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Determining Molecular Conformation from Distance or Density Data
  Lukasz A Weber
M.Eng. 2000
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Generation of Unique Chemical Libraries by Combinatorial Means
  Xiaona Wei

Singapore-MIT Alliance
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  Gareth D White
Technical Assistant
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  A Katharina Wilkins
Ph.D. 2008
Chemical Engingeering
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Sensitivity Analysis of Oscillating Dynamical Systems with Applications to the Mammalian Circadian Clock
  David Witmer
UROP
Undergraduate Research Opportunity Program
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  Aurore Zyto
Ph.D. 2008
Biological Engingeering
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Computational Modeling of Protein-biomolecule Interactions with Applications to Mechanotransduction and Antibody Maturation


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