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Participating Groups

The following faculty currently own shares in Proteus:


Garritt Tucker (Materials Science and Engineering, College of Engineering)
The Materials Modeling for Extreme Environments (MMEE) research group in the MSE department at Drexel University pursues fundamental research in nanostructured materials for enhanced mechanical and radiation tolerance in extreme environments using ab initio, atomistic, mesoscale, and multiscale modeling techniques. Our specific aim is to elucidate structural/compositional effects that drive enhanced functionality in novel materials by employing a variety of computational methods and forming synergistic efforts with experiments.

Gail Rosen (Electrical and Computer Engineering, College of Engineering)
The EESI Lab makes computational methods to study ecology and evolution, especially studies of microbial communities.  Such environmental and health studies can comprise terabytes of data and require sophisticated machine learning and signal processing algorithms.

Kurt Sjoblom (Civil, Architectural, and Environmental Engineering, College of Engineering)
Looking at how the microfabric of clay soils evolve during shear using molecular dynamic simulations. This work will lead to better predictions of macro material responses due to loading events, e.g., reactivation of a landslide induced by heavy rainfall.

Yared Shifferaw Bayleyegn (Civil, Architectural, and Environmental Engineering, College of Engineering)
Computational and experimental mechanics, structural stability, optimization, health monitoring and hazard mitigation, sustainable structures, emerging materials, thin-walled structures and metallic structures.

The following faculty currently have user access to Proteus' University Block:

Cameron Abrams (Chemical and Biological Engineering, College of Engineering)
Molecular simulations in biology and materials; enhanced sampling for structure prediction and transport property estimation.

Hasan Ayaz (Biomedical Engineering, School of Biomedical Engineering, Science and Health Systems)
We are investigating the potential of brain computer interface development using optical brain imaging sensors.

Marcello Balduccini (College of Computing and Informatics)
Knowledge representation and reasoning, including ontologies, agent architectures, commonsense, natural language understanding, and constraint satisfaction.

Mian Dai (Economics - Industrial Organization, Structural Econometrics)
We estimate models of competition under various contexts such as airline, venture capital, and health care providers etc. Our approach helps predict counterfactual market outcomes under alternative policy interventions. 

Casey Dougal (Finance - Corporate Governance, LeBow College of Business)
This research investigates the role of firm- and manager-specific heterogeneity in firm outcomes.

Gary Friedman (Electrical and Computer Engineering, College of Engineering)
Modeling of dynamic properties of magnetic nanoparticles for applications in medical imaging and detection of biomarkers.

Mary Katherine Gonder (Biology, College of Arts and Sciences)
We will be using whole genome sequences of chimpanzee subspecies to develop a high-resolution single nucleotide polymorphism (SNP) typing scheme. This will help to quickly type and analyze newly collected samples for use in population genomic analyses. 

Mark Hempstead (Electrical and Computer Engineering, College of Engineering)
The performance of modern computing devices—from mobile to datacenter—is limited by the cost of moving data. How this communication affects the performance of future systems depends on many interrelated factors including the algorithm, software implementation, memory system and network‐on‐chip (NoC). This work aims to optimize the design of next generation microprocessors through the co-design of the hardware, software, and memory system.

Antonios Kontsos (Mechanical Engineering & Mechanics, College of Engineering)
A systematic effort to introduce physics-based damage laws in computational studies of deformation and damage of advanced composites is performed in an Integrated Computational Materials Engineering (ICME) framework.

Sandhya Kortagere (Microbiology and Immunology, College of Medicine)
Design and development of small molecule modulators of protein-protein interactions and other proteins of therapeutic relevance using Structure Based Drug Design techniques.

Hualou Liang (School of Biomedical Engineering, Science and Health Systems)
Computational analysis of large-scale brain networks, and biomedical signal processing. 

Geoffrey Mainland (Computer Science, College of Computing and Informatics)
We are developing language and compiler technology to compile high-level languages to efficient, low-level code.

Steve McMillan (Physics, College of Arts and Sciences)
Radiation magnetohydrodynamic simulations of star-forming regions.

Daniel Mirman (Psychology, College of Arts and Sciences)
An evaluation of methods for multiple comparison correction in voxel-based lesion-symptom mapping. The overall goal is to identify methods that optimize the trade-off between statistical power (detecting true effects) and avoiding false positives

Andréia C. K. Mortensen (Pharmacology & Physiology, College of Medicine)
This work is focused on understanding mechanisms of regulation of the human glutamate transporter EAAT2, using molecular modeling of the homologous bacterial transporter GltPh.

Karen Moxon (School of Biomedical Engineering, Science and Health Systems)
This project has created an extremely rare database of high frequency recordings from the mesial temporal lobe (MTL) of human epileptic patients. The current project is  an investigation of single neuron dynamics in the periods leading up to spontaneous seizure generalization to MTL.

Jacob Russell (Biology, College of Arts and Sciences)
We perform metagenomic analyses to elucidate the functions of symbiotic gut bacteria from ants.

Christopher Sales (Civil, Architectural, and Environmental Engineering, College of Engineering)
Our group analyzes chemical data and molecular biology sequences collected from natural and engineered environmental systems. Advances in analytical chemistry and molecular biology techniques have enabled high-throupghput production of large amounts of data that requires significant computing power to analyze.

Ioannis Savidis (Electrical and Computer Engineering, College of Engineering)
Ioannis's research focus is on the improvement of high performance integrated circuits through accurate and efficient analysis and design. Although simulation on an entire integrated circuit containing over one billion transistors is prohibitively expensive, computing clusters are exploited to model and analyze larger circuit sub-blocks for functionality and timing. Through proper analysis, improvements in circuit performance are achieved while meeting the noise constraints and power requirements ofan integrated circuit.

Ali Shokoufandeh (Computer Science, College of Computing and Informatics)
This project focuses on graph matching problem and its applications on several real life problems in the field of pattern recognition and user association.

Gideon Simpson (Mathematics, College of Arts and Sciences)
My active areas of research include partial differential equations, molecular dynamics and statistical inverse problems.  This includes solving time dependent nonlinear wave equations using finite differences, finite elements, and spectral methods.

Masoud Soroush (Chemical and Biological Engineering, College of Engineering)
Molecular dynamics simulations will be conducted to predict material properties of nanostructures, and kinetics of polymerization reactions will be studied using quantum chemical calculations.

Jonathan Spanier (Materials Science and Engineering, College of Engineering)
We seek to carry out finite-difference Poisson-Schrodinger calculations of electrostatic potential and charge density in complete oxide heterostructures. Simulation code has been developed within the Spanier group.

Loni Philip Tabb (Epidemiology and Biostatistics, School of Public Health)
Research carried out involves building Markov chain Monte Carlo algorithms for Bayesian multilevel models, as well as analyses of zero-inflated (longitudinal) count data in application areas ranging from environmental to health disparities.

Baris Taskin (Electrical and Computer Engineering, College of Engineering)
Design space exploration of a hardware-software design platform for chip multiprocessors and network-on-chips.

Jason D. Weckstein (Biodiversity, Earth and Environmental Sciences, College of Arts and Sciences)
My laboratories work uses DNA sequence data to reconstuct the evolutionary history of birds and their parasites. We will use Proteus to analyze various next generation DNA sequencing libraries for our research.

Christopher Weinberger (Mechanical Engineering and Mechanics, College of Engineering)
Dr. Weinberger's research focuses on the development of analytical and computer models to describe the mechanical and structural properties of ceramics, metals and their alloys at the nano- micro- and macro-scales. The goal of this work is to link atomic bonding, defects and microstructure to material performance at the macroscale.

Bryan Wong (Chemistry; UC Riverside)
My research group carries out quantum mechanical calculations to understand electron transfer and dynamics in nanomaterials.

Ming Xiao (Biomedical Engineering)
Whole genome mapping and sequencing for human genomic structural variation analysis.

Fengqing Zoe Zhang (Psychology, College of Arts and Sciences)
The massive neuroimaging data present opportunities for new discoveries as well as unique computational and statistical challenges. My research focuses on statistical modeling for high dimensional structured data with application to neuroimaging.

The following faculty currently have hardware hosted in the URCF: