MSM Participants

Name Project Email WGs
Geoffrey Abbott, Ph.D. Predictive MSM of Atrial Fibrillation for Therapy Development GWA2001@MED.CORNELL.EDU
Gary An, M.D. EMT/BSSE: Hierarchical Representation and Simulation of Modular Cellular Systems [1]
Kurt Anderson, Ph.D. Framework for the Adaptive Multiscale Modeling of Biopolymers anderk5@rpi.edu
Russ Altman, M.D., Ph.D. Physics-Based Simulation of Biological Structures russ.altman@stanford.edu
Portonovo Ayyaswamy Bridging multiple scales in modeling targeted drug nanocarrier delivery ayya@seas.upenn.edu
Victor Barocas, Ph.D. Multiscale Modeling of Facet Capsule Mechanobiology; Multiscale Mechanics of Bioengineered Tissues baroc001@umn.edu
James (Jim) Bassingthwaighte, M.D., Ph.D. Software Integration between JSim and Systems Biology Workbench; Modeling for Heart, Lung, and Blood: From Cell to Organ; Adaptive Multi-Scale Model Simulation, Reduction and Integration for Cardiac Muscle Physiology jbb2@u.washington.edu Model and Data Sharing Working Group
Daniel Beard, Ph.D. Multi-Scale Modeling of the Heart in Metabolic Syndrome and Cardiovascular Disease, Mechanisms of Metabolic Dysfunction in Heart Disease beardda@umich.edu Multiscale Systems Biology Working Group
Scott Berceli, M.D., Ph.D. Multiscale Network Modeling of Hemodynamically-Driven Vascular Adaptation bercesa@surgery.ufl.edu
Theodore Berger Predictive modeling of bioelectric activity on mammalian multilayered neuronal structures in the presence of supraphysiological electric fields berger@bmsr.usc.edu Computational Neuroscience Working Group
Jeff Bischoff, Ph.D. Research Interests: Multiscale Joint Biomechanics jeff.bischoff@zimmer.com
Michael Blinov National Resource for Cell Analysis and Modeling; www.ccam.uchc.edu; vcell.org blinov@uchc.edu  
Danny Bluestein, Ph.D. Optimizing Cardiovascular Device Thromboresistance for Eliminating Anticoagulants dbluestein@ms.cc.sunysb.edu
Georgiy Bobashev Researching Social Dynamics of Local Methamphetamine Market bobashev@rti.org
James Bower, Ph.D. GENESIS BOWER@uthscsa.edu
James Brasseur, Ph.D. Micro-scale Transport as a Critical Link between Molecular-Scale Absorption and Macro-Scale Mixing in Gut Physiology and Function brasseur@engr.psu.edu
Markus Buehler, Ph.D. Models to predict protein biomaterial performance mbuehler@MIT.EDU IMuBEAM
David Cai Collaborative Research: Cortical Processing across Multiple Time- and Space-Scales http://www.cims.nyu.edu/~yisun/publication.html http://www.rpi.edu/~kovacg/ http://www.math.nyu.edu/~cai/Publications/index.html cai@cims.nyu.edu
William Cannon, Ph.D. Hierarchical, Multi-Objective Optimization of Microbial Community Proteomic Systems william.cannon@pnl.gov
Xiaolin Cheng, Ph.D. Multiscale Mathematics and Simulations of Complex Biological Systems chengx@ornl.gov
Howard Chizeck, Sc.D. Adaptive Multi-Scale Model Simulation, Reduction and Integration for Cardiac Muscle Physiology http://nsr.bioeng.washington.edu chizeck@u.washington.edu
Yoonsuck Choe, Ph.D. Multi-Scale Imaging, Analysis, and Integration of Brain Networks choe@tamu.edu
Sharon Crook, Ph.D. NeuroML Standards and Tools for Multiscale Model Specification and Exchange Sharon.Crook@asu.edu
David Christini, Ph.D. Predictive MSM of Atrial Fibrillation for Therapy Development dchristi@med.cornell.edu
Ming Dao, Ph.D. Multiscale Modeling and Parallel Simulations of Blood Flow in Cerebral Malaria and Sickle Cell Diseases mingdao@mit.edu
David D'Argenio, Ph.D. Biomedical Simulations Resource: Core Project #1 - Pharmacokinetic/Pharmacodynamic Systems Analysis dargenio@bmsr.usc.edu
Suvranu De, Sc.D. A Self-Consistent Multiscale Method for Modeling the Effects of Neutron Irradiation on the Mechanical Properties of BCC and FCC Metals; Nonlinear Multiscale Modeling of 3D Woven Fiber Composites Under Ballistic Loading; Development of a Self-Consistent Multiscale Method for Coupled Nonlinear Micro Macro Analysis of Heterogeneous Explosives; http://acor.rpi.edu/, http://www.springer.com/engineering/biomedical+eng/book/978-90-481-3574-5 des@rpi.edu
Thomas Deisboeck, M.D. Center for the Development of a Virtual Tumor, CViT https://www.cvit.org deisboec@helix.mgh.harvard.edu
Scott Delp, Ph.D. Physics-Based Simulation of Biological Structures delp@stanford.edu
Yasin Dhaher A Multi-Scale Modeling Construct of Knee Mechanics following ACL Reconstruction y-dhaher@northwestern.edu Biomechanics Working Group
Thomas Diacovo, M.D. Model of Platelet Adhesion and Thrombus Formation td2142@columbia.edu
Scott Diamond, Ph.D. (Talid Sinno, Lawrence (Skip) Brass) [ www.bloodsystemsbiology.org Blood Systems Biology] SLD@SEAS.UPENN.EDU Theoretical and Computational Methods; Clinical and Translational Issues Working Group
David Eckmann, M.D., Ph.D. Bridging multiple scales in modeling targeted drug nanocarrier delivery // Targeted Microcarrier Design and Optimization David.Eckmann@uphs.upenn.edu Clinical and Translational Issues Working Group
Uri Tzvi Eden Multiscale analysis and modeling of spatiotemporal dynamics in human epilepsy tzvi@bu.edu
Daniel Einstein 3D Imaging & Computer Model of the Respiratory Tract daniel.einstein@pnl.gov
Mounya Elhilali Overcoming the Cocktail Party Problem: a Multi-Scale Perspective on the Neurobiology of Auditory Scene Analysis mounya@jhu.edu
Ahmet Erdemir, Ph.D. Efficient Methods for Multi-Domain Biomechanical Simulations, Predicting Cell Deformation from Body Level Mechanical Loads, Open Knee: A Three-Dimensional Finite Element Representation of the Knee Joint erdemira@ccf.org Biomechanics Working Group, Model and Data Sharing Working Group, Committee on Credible Practice of Modeling and Simulation in Healthcare
Arthur Erdman, Ph.D. Modeling, Simulation, and Visualization for Medical Device Design. http://ivlab.cs.umn.edu/NSFNIHBIGDATA/ agerdman@umn.edu  
Stephen Eubank, Ph.D. Modeling Immunity to Enteric Pathogens (MIEP) seubank@vbi.vt.edu
Ronan Fleming, Ph.D. Numerical Optimization Algorithms and Software for Systems Biology ronan.mt.fleming@gmail.com Multiscale Systems Biology Working Group
Joanne Flynn, Ph.D. A multi-scale model to predict outcomes of immuno- modulation and drug therapy during TB joanne@pitt.edu
Alison Galvani Evaluating the social influences that impact vaccination decisions; Impacts of Individual and Social Behavior on Influenza Dynamics and Control; http://galvani.medicine.yale.edu/index.aspx ALISON.GALVANI@YALE.EDU
Marc Garbey Multiscale Network Modeling of Hemodynamically-Driven Vascular Adaptation garbey@cs.uh.edu Clinical and Translational Issues Working Group
Guy Genin Cross-scale interactions between mineral and collagen for tendon-bone attachment genin@wustl.edu IMuBEAM
Frank Gertler Modeling bi-directional signaling and cytoskeletal dynamics in 3D cell migrations fgertler@mit.edu
James Glazier CompuCell3D glazier@indiana.edu
Mark Gordon, Ph.D. Multiscale Mathematics and Simulations of Complex Biological Systems gordon@ameslab.gov mark@si.msg.chem.iastate.edu
Weiyong Gu, Ph.D.   wgu@miami.edu
Trent Guess, Ph.D. Dynamic Simulation of Joints Using Multi-Scale Modeling guesstr@umkc.edu
Runesha B. Hakizumwami, Ph.D. Modeling, Simulation, and Visualization for Medical Device Design. http://ivlab.cs.umn.edu/NSFNIHBIGDATA/ runesha@uchicago.edu
Randy Heiland, M.S. CompuCell3D heiland@indiana.edu
John Higgins Multiscale Modeling of Sickle Cell Anemia: Methods and Validation Higgins.John@mgh.harvard.edu  
Anthony Hunt, Ph.D. Media:Research_Description_for_MSM04May10.pdf http://biosystems.ucsf.edu/index.htm a.hunt@ucsf.edu
Jay Humphrey, Ph.D. Evolving Mechanics of Intraluminal Thrombus: From Formation to Organization jay.humphrey@yale.edu
Peter Hunter, Ph.D. International Union of Physiological Sciences Council Member p.hunter@auckland.ac.nz Model and Data Sharing Working Group
Dov Jaron Multiscale, Transport-Dependent NO Signaling: Cells to Vascular Networks djaron@coe.drexel.edu
Paul Jasper Numerical Tools for Analyzing Cell Signaling Circuits in Normal and Tumor Cells pjasper@numericatech.com
Karl Jepsen Genetic Determination of Skeletal Fragility  
Yufang Jin, Ph.D. Mathematical Modeling of Matrix Metalloproteinase-9 Driven Left Ventricular Remodeling Post Myocardial Infarction Yufang.Jin@utsa.edu High Performance Computing Working Group
Wolfgang Kainz, PhD Development of a functional ultra-high resolution head model Wolfgang.Kainz@fda.hhs.gov  
Roger Kamm, Ph.D. Modeling bi-directional signaling and cytoskeletal dynamics in 3D cell migrations Multi-Scale Analysis of Cellular Force Transmission and Biochemical Activation rdkamm@mit.edu
David Kaplan, Ph.D. Models to Predict Protein Biomaterial Performance David.Kaplan@tufts.edu IMuBEAM
George Karniadakis, Ph.D. A Stochastic Molecular Dynamics Method for Multiscale Modeling of Blood Platelet Phenomena george_karniadakis@brown.edu Theoretical and Computational Methods
Daniel Keefe, Ph.D. Modeling, Simulation, and Visualization for Medical Device Design. http://ivlab.cs.umn.edu/NSFNIHBIGDATA/ keefe@cs.umn.edu
Roy Kerckhoffs The Role of Transmural Gradients of Excitation-Contraction Coupling in the Ventricularly Paced Normal and Failing Heart roy@eng.ucsd.edu
Michael King Model of Platelet Adhesion and Thrombus Formation mike.king@cornell.edu Multiscale Systems Biology Working Group
Denise Kirschner, Ph.D. A multi-scale model to predict outcomes of immuno- modulation and drug therapy during TB kirschne@umich.edu Multiscale Systems Biology Working Group
Gregor Kovacic, Ph.D. Collaborative Research: Cortical Processing across Multiple Time- and Space-Scales http://www.cims.nyu.edu/~yisun/publication.html http://www.rpi.edu/~kovacg/ kovacg@rpi.edu
Mark Kramer Multiscale analysis and modeling of spatiotemporal dynamics in human epilepsy mak@bu.edu
Joy Ku, Ph.D. Physics-Based Simulation of Biological Structures; https://simtk.org/xml/index.xml joyku@stanford.edu Model and Data Sharing Working Group
Rob Kunz, Ph.D. Multi-Scale Human Respiratory System Simulations to Study the Health Effects of Aging, Disease and Inhaled Substances rfk102@only.arl.psu.edu
Anthony (Tony) Ladd, Ph.D. Multi-Scale Modeling of Chemical-to-Mechanical Energy Conversion in Actin-Based Motility tladd@che.ufl.edu
Nicola Lai, Ph.D. (in place of Marco Cabrera) Time Course of Metabolic Adaptations During Loading and Unloading nicola.lai@case.edu
Robert Latour, Ph.D.   latourr@clemson.edu IMuBEAM
Gianluca Lazzi Predictive modeling of bioelectric activity on mammalian multilayered neuronal structures in the presence of supraphysiological electric fields lazzi@utah.edu
Peter Laz A Multi-Scale Finite Element Musculoskeletal Modeling Framework Applied to Current Issues in Joint Replacement Peter.Laz@du.edu
Jonathan Lederer Calcium Entrained Arrhythmias jlederer@umaryland.edu
Ching-Long Lin, Ph.D. An integrative statistics-guided image-based multi-scale lung model; Multiscale Simulation of Gas Flow Distribution in the Human Lung ching-long-lin@uiowa.edu Cell-to-Macroscale Working Group
Jennifer Linderman, Ph.D. A multi-scale model to predict outcomes of immuno- modulation and drug therapy during TB linderma@umich.edu
Yaling Liu, Ph.D. Modeling Particle Shape Effect in Nanomedicine yal310@Lehigh.EDU
Leslie Loew National Resource for Cell Analysis and Modeling; www.ccam.uchc.edu; vcell.org les@volt.uchc.edu Multiscale Systems Biology Working Group
Georg Luebeck, Ph.D. Scales of Carcinogenesis: Cells, Crypts and Cancer; Controlling Esophageal Cancer in the US.: A Colloraborative Modeling Project gluebeck@fhcrc.org
Bill Lytton, M.D. Extension of NEURON Simulator for Simulation of Reaction-Diffusion in Neurons ; NEURON Simulator billl@neurosim.downstate.edu Clinical & Translational; Computational Neuroscience
Carlo Maley, Ph.D. Scales of Carcinogenesis: Cells, Crypts and Cancer cmaley@wistar.org
Parag Mallick Multi-scale Complex Systems Transdisciplinary Analysis of Response to Therapy paragm@stanford.edu
Madhav Marathe, Ph.D. Modeling Immunity to Enteric Pathogens (MIEP) mmarathe@vbi.vt.edu Population Modeling Working Group
Roger Mark, M.D., Ph.D. Physionet rgmark@mit.edu Model and Data Sharing Working Group
Vasilis Marmarelis, Ph.D. Biomedical Simulations Resource (BMSR) vzm@usc.edu [Mathematical & Computational Methods]
Andrew McCulloch, Ph.D. Multi-Scale Modeling of the Mouse Heart: From Genotype to Phenotype http://cmrg.ucsd.edu, Multi-Scale Modeling of the Failing Heart for Cardiac Rysynchronization Therapy amcculloch@ucsd.edu
Jill McNitt-Gray, Ph.D. http://www.asbweb.org/index.html ; http://dornsife.usc.edu/cf/faculty-and-staff/faculty.cfm?pid=1003520&CFID=1692145&CFTOKEN=13548813 mcnitt@usc.edu
Michael Meyer-Hermann, Ph.D. Mathematical Modeling of the Migration in Germinal Centres m.meyer-hermann@fias.uni-frankfurt.de
George Moody Physionet george@MIT.edu Model and Data Sharing Working Group
James Moore, Ph.D. Lymphatic Fluid Flow Modeling with Active Network Components james.moore.jr@imperial.ac.uk Biomechanics Working Group
Ion Moraru National Resource for Cell Analysis and Modeling; www.ccam.uchc.edu; vcell.org moraru@panda.uchc.edu  
Lealem Mulugeta   Mulugeta@dsls.usra.edu Committee on Credible Practice of Modeling and Simulation in Healthcare
Wendy Murray Prosthesis Control by Forward Dynamic Simulation of the Intact Biomedical System w-murray@northwestern.edu  
Mark Musen, M.D., Ph.D. The National Center for Biomedical Ontology musen@stanford.edu
Sriram Neelamegham Systems Biology of Glycosylation neel@buffalo.edu  
Sergey Nuzhdin    snuzhdin@usc.edu Population Modeling Working Group
Peter Ortoleva Intercellular Genomics of Subsurface Microbial Colonies ortoleva@indiana.edu
Manish Parashar http://nsfcac.rutgers.edu/people/parashar/ parashar@rutgers.edu
Abani Patra, Ph.D. http://www.mae.buffalo.edu/people/full_time/a_patra.php abani@buffalo.edu
Bernhard Palsson Numerical Optimization Algorithms and Software for Systems Biology palsson@ucsd.edu
Linda Petzold, Ph.D. Stochastic Simulation Service: A Cloud Computing Framework for Modeling and Simulation petzold@cs.ucsb.edu Theoretical and Computational Methods
Teresa Pitts, Ph.D. Regulation of Airway Protection tepitts@ufl.edu Computational Neuroscience Working Group
Sylvia Plevritis http://rsl.stanford.edu/plevritis/ Comparative Modeling of Lung Cancer Control Policies sylvia.plevritis.edu
Aleksander Popel Predictive Experiment-Based Multiscale Models of Angiogenesis in Breast Cancer apopel@jhu.edu Multiscale Systems Biology Working Group
Vito Quaranta Image Driven Multi-Scale Modeling to Predict Treatment Response in Breast Cancer vito.quaranta@vanderbilt.edu Multiscale Systems Biology Working Group
Ravi Radhakrishnan Bridging multiple scales in modeling targeted drug nanocarrier delivery // Lab URL rradhak@seas.upenn.edu Multiscale Systems Biology Working Group; Theoretical and Computational Methods; High Performance Computing Working Group
John Rice  

john.rice@noboxes.org

 
Peter Richardson A Stochastic Molecular Dynamics Method for Multiscale Modeling of Blood Platelet Phenomena Peter_Richardson@brown.edu
Paul Rullkoetter A Multi-Scale Finite Element Musculoskeletal Modeling Framework Applied to Current Issues in Joint Replacement Paul.Rullkoetter@du.edu
Ilya Rybak, Ph.D. Multiscale Model of Neural Control of Breathing ilya.rybak@drexelmed.edu
Gerald Saidel, Ph.D. (in place of Marco Cabrera) Time Course of Metabolic Adaptations During Loading and Unloading gerald.saidel@case.edu
Edward Sander, Ph.D. Controlling the Mechanobiology of Cutaneous Wounds to Reduce Hypertrophic Scar edward-sander@uiowa.edu Cell-to-Macroscale Working Group
Terence Sanger, M.D., Ph.D. High Speed Simulation of Developmental Motor Disorders tsanger@usc.edu
Michael Saunders Numerical Optimization Algorithms and Software for Systems Biology saunders@stanford.edu
Herbert Sauro, Ph.D. Software Integration between JSim and Systems Biology Workbench, Modeling for Heart, Lung, and Blood: From Cell to Organ hsauro@u.washington.edu Model and Data Sharing Working Group
Jay Schieber CISE: Multiscale Modeling to Develop a Cyberinfrastructure for the Dynamics of Flexible and Stiff Entangled Macromolecules http://polyhub.org/bin/view sjs49@engr.psu.edu
Steven Schiff CRCNS Collaborative Research: Model-Based Control of Spreading Depression schieber@iit.edu
Bill Schultz http://www-personal.umich.edu/~schultz/ schultz@umich.edu
James Schwaber http://www.dbi.tju.edu james.schwaber@jefferson.edu
Daniel Segre An Open Source Platform for Multi-Scale Spatially Distributed Simulations of Microbial Ecosystems dsegre@bu.edu
Terrence (Terry) Sejnowski, Ph.D. Integrated Empirical and Multiscale Modeling of Human Sleep Spindles sejnowski@salk.edu
Kevin Shelburne A Multi-Scale Finite Element Musculoskeletal Modeling Framework Applied to Current Issues in Joint Replacement, http://www.du.edu/biomechanics kevin.shelburne@comcast.net
Yohannes Shiferaw MSM of Calcium Mediated Triggered Activity in the Heart yohannes.shiferaw@csun.edu
Jeff Smith, Ph.D. Multiscale Model of Neural Control of Breathing jsmith@helix.nih.gov
Jeremy Smith Multiscale Mathematics and Simulations of Complex Biological Systems smithjc@ornl.gov
Subra Suresh, Sc.D. Multiscale Modeling and Parallel Simulations of Blood Flow in Cerebral Malaria and Sickle Cell Diseases ssuresh@mit.edu
Maciej Swat, Ph.D. Multiscale Studies of Segmentation in Vertebrate Embryos mswat@indiana.edu
Dalin Tang, Ph.D. In Vivo IVUS Image-Based Modeling for Human Coronary Plaque Assessment dtang@wpi.edu
Michela Taufer, Ph.D. DAPLDS: A Dynamically Adaptive Protein-Ligand Docking System Based on Multi-Scale Modeling taufer@acm.org
Merryn Tawhai, Ph.D. Airway Hyperresponsiveness: From Molecule to Organ m.tawhai@auckland.ac.nz
Darryl Thelen A Multi-Scale Modeling Construct of Knee Mechanics following ACL Reconstruction THELEN@ENGR.WISC.EDU
Ines Thiele Numerical Optimization Algorithms and Software for Systems Biology ines.thiele@googlemail.com
Stavros Thomopoulos Cross-scale interactions between mineral and collagen for tendon-bone attachment thomopouloss@wudosis.wustl.edu IMuBEAM
Natalia Trayanova Resynchronizing the Failing Heart: Insights from a Multiscale Cardiac Model ntrayanova@jhu.edu
Raj Vadigepalli "Modeling Central Autonomic Regulatory Network Adaptation to Hypertension” and “Integrated Modeling of Adaptive Neuronal Regulation” Rajanikanth.Vadigepalli@jefferson.edu Computational Neuroscience Working Group
Peter Vekilov Multiscale Modeling of Sickle Cell Anemia: Methods and Validation pgvekilo@Central.UH.EDU
Marco Viceconti Insigneo Institute m.viceconti@sheffield.ac.uk
Paolo Vicini, Ph.D. Research Interests: Pharmacokinetics, Pharmacodynamics, Biotherapeutics, Translational Research, Model Identification and Parameter Estimation paolo.vicini@pfizer.com
Yoram Vodovotz, Ph.D. Mathematical Modeling of Inflammation in ARDS vodovotzy@upmc.edu Multiscale Systems Biology Working Group; Clinical and Translational Issues
Jeff Weiss, Ph.D. FEBio-Finite Elements for Biomechanics and Biophysics jeff.weiss@utah.edu
Ron White, Ph.D. http://sdmines.sdsmt.edu/sdsmt/directory/personnel/rwhite Ronald.White@sdsmt.edu
Bridget Wilson, Ph.D. Mapping and Modeling ErbB Receptor Membrane Topography bwilson@salud.unm.edu
Beth Winkelstein Multiscale Modeling of Facet Capsule Mechanobiology winkelst@seas.upenn.edu Biomechanics Working Group
Raimond Winslow Cardio Vascular Research Grid Project, http://www.cvrgrid.org    
Joyce Wong, Ph.D. Models to predict protein biomaterial performance jywong@bu.edu IMuBEAM
Tom Yankeelov Image Driven Multi-Scale Modeling to Predict Treatment Response in Breast Cancer thomas.yankeelov@vanderbilt.edu Clinical and Translational Issues Working Group
Kaiming Ye   kye@binghamton.edu
Muhammad Zaman Modeling bi-directional signaling and cytoskeletal dynamics in 3D cell migrations zaman@bu.edu Biomechanics Working Group
Yanhang Zhang Multi-Scale Integration of Extracellular Matrix Mechanics in Vascular Remodeling yanhang@bu.edu Biomechanics Working Group
Xiaobo Zhou, Ph.D. Modeling the Growth of the MIC Niche at the System Level xizhou@wakehealth.edu