URCF Researchers
Cameron Abrams (Chemical and Biological Engineering, College of Engineering)
Molecular simulations in biology and materials; enhanced sampling for structure prediction and transport property estimation.
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Joshua Agar (Mechanical Engineering & Mechanics, College of Engineering)
We are trying to build physics-informed machine learning models to learn order, symmetry, and periodicity in images. This concept is pervasive in materials science, physics, and biology.
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Young-Hoon Ahn (Chemistry, College of Arts and Sciences)
Computational docking and virtual screening of enzymes in redox biology.
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Daniel Albert (Management, LeBow College of Business)
This project applies agent-based modeling to study complex decision-making processes within organizations. In particular, the project investigates the role of changes to the underlying interdependency structure of a set of choices.
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Dr. Jessica Ausborn (Neurobiology and Anatomy, College of Medicine)
Development of computational models of neurons and networks involved in the processing of looming stimuli in Drosophila melanogaster.
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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.
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Sriram Balasubramanian (Biomedical Engineering, School of Biomedical Engineering)
Automated segmentation of anatomical structures from X-ray images.
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Scarlett Bellamy (Epidemiology and Biostatistics, Dornsife School of Public Health)
Our work focuses on developing multilevel latent variable models for integrative analysis of multi-omics data with repeated measurements.
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Michel Barsoum (Materials Science & Engineering, College of Engineering)
In this work we are deforming graphite single crystals by using cylindrical nanoindenters. We show that the atomic layers actually buckle like macroscopic layers.
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Michael Bouchard (Biochemistry & Molecular Biology, College of Medicine)
We will identify specific omics signatures that differ in liver cancer samples as compared to normal liver samples.
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Sebastien Bradley (Economics, LeBow College of Business)
This project examines the impact of preferential tax regimes for patent and IP income on innovation, income reallocation, and cross-border mergers and acquisitions activity.
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David E. Breen (Computer Science, College of Computing and Informatics)
The group develops algorithms and software that solve geometry-related computing problems for a variety of biomedical applications.
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Eric Brewe (Physics, College of Arts & Sciences)
We will be developing and deploying a Python model for NLP on 2500 short answers to a single question.
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Shannon Capps (Civil, Architectural, and Environmental Engineering, College of Engineering)
Air quality modeling: estimating influences of emissions sources; evaluating health, ecosystem and climate impacts of pollutants;assimilating observations to improve models.
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Zhiwei Chen (Civil, Architectural, and Environmental Engineering, College of Engineering)
This project aims to analyze the interactions between urban form, transportation networks, and facility distribution in equitable cities.
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Luis Cruz Cruz (Physics, College of Arts & Sciences)
Here we develop a spiking neural network that supports temporal coding, utilizes a non-divergent spike timing dependent plasticity learning, and implements a biologically-plausible feedback pathway.
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Mian Dai (Economics, LeBow College of Business)
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.
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Kapil Dandekar (Electrical and Computer Engineering, College of Engineering)
The main purpose of this work is to characterize these multi-threaded application traces and generate connectivity graphs that would indicate possible architectural changes, including 1) re-mapping certain threads to specific cores closer to specific memory locations, 2) splitting the larger chip into several smaller chiplets and mapping groups of threads to specific chiplet, and 3) configuring on-chip memory (for example HBM) to be optimized to a particular communication and computation pattern.
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Simon Danner (Neurobiology and Anatomy, College of Medicine)
We use computer models to study how spinal neural networks integrate sensory feedback and supraspinal commands to control locomotion.
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Ana V. Diez Roux (Epidemiology and Biostatistics, Urban Health, Dornsife School of Public Health)
This work uses agent-based modeling to simulate drinking behavior in a social network, and explores its interrelationship with depression over time. The potential impact of policies targeting the alcohol environment, on the prevalence of alcohol misuse and depression is also interrogated.
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Daniel Dorn (Finance, LeBow College of Business)
This project uses URCF resources in order to detect changes in intraday stock market quality as a result of social media platform outages.
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Michaela Draganska (Marketing, LeBow College of Business)
Investigation of video game play behavior and its implications for firm's pricing decisions.
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Bakhtier Farouk (Mechanical Engineering & Mechanics, College of Engineering)
Impact physics (solid-solid and solid liquid) problems are omni-present; however analytical solutions are based on simplistic assumptions. Detailed numerical simulations of the impact problem is currently being pursued by our group.
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Evan Forman (Psychology, College of Arts & Sciences)
Permutation test will be conducted in order to examine the ability of our machine learning algorithm to predict dietary lapses at a level that is better than chance.
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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.
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Neal D. Goldstein (Epidemiology & Biostatistics, Dornsife School of Public Health)
This work simulates a hospital’s intensive care unit for neonates, and informs infection prevention efforts on how factors such as hand hygiene and patient contact correlate to risk for communicable disease.
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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.
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Aritra Halder (Epidemiology and Biostatistics, Dornsife School of Public Health)
Segmentation in spatial and spatial-temporal fields for studying health disparities and biomedical tumor imaging.
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Simi Hoque (Civil, Architectural, and Environmental Engineering, College of Engineering)
We are creating an IUMAT model of five different cities to understand the relationship between surface temperature, land use, urban canopy cover, and building density.
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Yong-Jie Hu (Materials Science and Engineering, College of Engineering)
First-principles calculations and molecular dynamic simulations will be performed to study the structural, energetic, and electronic properties of various materials systems. Our research will focus on the application and development of cutting edge computational techniques as well as machine learning algorithms to understand, design, and discover advanced materials.
Jaquelyn Jahn (Epidemiology & Biostatistics, Dornsife School of Public Health)
She is a social epidemiologist whose research investigates how structural racism shapes maternal and child health and population health equity. Much of her work focuses on the health of individuals, families, and communities that are affected by the U.S. criminal legal system.
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Frank Ji (Chemistry, College of Arts and Sciences)
The RelA/SpoT homologue is an understudied drug target for mediating bacteria biofilm synthesis. Some antibiotic resistances, for example, have been partially attributed to bacteria’s ability to produce biofilm, which shields them from hostile environments. Utilizing computational molecular dynamics, diverse ligand sets can be screened to yield structural and chemical data pertinent to designing inhibitors and potential drug candidates for the RelA/SpoT complex.
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Marilyn Jorns (Biochemistry and Molecular Biology, College of Medicine)
Use computational molecular replacement approaches to solve the phase problem and generate high resolution protein crystal structures.
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Mat Kelly (Information Science, College of Computing & Informatics)
The dark web, while notorious for illicit content, also provides an out-of-band means for legitimate communication in areas where censorship restricts access to the surface world wide web. In this work we investigate, archive, and classify portions of the dark web for further study to determine the uniqueness of content as contained in conventional web archives.
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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.
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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.
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John Kounios (Psychological and Brain Sciences, College of Arts and Sciences)
John Kounios and doctoral student (Yongtaek Oh) will use convolutional neural networks to classify electroencephalograms (EEG) while human subjects solve verbal puzzles. This will enable them to analyze the different cognitive strategies that people use during problem-solving.
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J. Yasha Kresh (Cardiothoracic Surgery, College of Medicine)
We aim to develop of a computational fluid-dynamic (CFD) model of the circulation that will allow comparisons of complex flow dynamics and parameters (i.e. velocity, pressure, wall-shear stress) between helical and non-helical flow measured in benchtop experimental morphologically realistic models of human regional arterial circulation.
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Aaron Kucyi (Psychological and Brain Sciences, College of Arts and Sciences)
The lab investigates neural mechanisms of spontaneous thought in both health and illness, using functional neuroimaging and electrophysiology in human subjects.
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André Kurmann (School of Economics, LeBow College of Business)
We estimate a New Keynesian Dynamic General Equilibrium model to evaluate its ability to match impulse responses to a productivity news shock observed in U.S. data.
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Ohyun Kwon (Economics, LeBow College of Business)
Quantitative analysis of how regional trade agreements affect the WTO and the consequence of removing financial barrier in China.
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Joshua Lequieu (Chemical and Biological Engineering, College of Engineering)
The Lequieu Lab uses simulation and theory to predict the structure of soft materials across molecular to microscopic length scales. Our research focuses on block polymer self assembly, and biological polymers like DNA.
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Hualou Liang (School of Biomedical Engineering, Science and Health Systems)
Computational analysis of large-scale brain networks, and biomedical signal processing.
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Tatyana Livshultz (Biodiversity, Earth & Environmental Sciences, College of Arts & Sciences)
The phylogeny of the genus Hoya (Apocynaceae, Asclepiadoideae), a group of ca. 200 Southeast Asian epiphytes, has remained unresolved in previous analyses using small amounts of sequence data. In this study, we are assembling whole chloroplast genomes to resolve the relationships among the species of Hoya and between Hoya and closely related genera, Dischidia and Oreosparte
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Timothy Maguire (Patrick Center for Environmental Research, Academy of Natural Sciences)
Water chemistry and biogeochemical cycles are always changing in space and time. We test hypotheses through a variety of Bayesian, frequentist, machine learning, and spatial modeling approaches to assess how water quality changes with human impact.
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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.
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Spiros Mancoridis (Computer Science, College of Computing & Informatics)
Software engineering malware detection.
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Leslie Ain McClure (Epidemiology and Biostatistics, Dornsife School of Public Health)
We develop estimands utilizing potential outcomes framework for clinical trial data with principal strata that arise due to intercurrent events in randomized comparative trials. Further, we introduce a Bayesian testing methodology that can account for the existence of principal strata in such clinical trials.
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Richard McCourt (Biodiversity, Earth & Environmental Science/Acad. of Natural Sciences, College of Arts and Sciences)
Next generation sequencing of algae in culture often reveal the presence of bacteria that grow in the cultures. We will survey the diversity of bacteria associated with several green algae in culture to see if the bacteria present are common contaminants or possibly mutualistic partners that help the algae to grow.
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Steve McMillan (Physics, College of Arts and Sciences)
Radiation magnetohydrodynamic simulations of star-forming regions.
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John D. Medaglia (Psychology, College of Arts and Sciences)
We analyze high-dimensional neuroimaging data to identify structural and functional biomarkers for healthy cognition and how to administer treatments in individuals with neuropsychological deficits.
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Joshua Chang Mell (Microbiology and Immunology, College of Medicine)
The Mell Group uses genomics to investigate the mechanism, consequences and evolution of genetic recombination, especially in pathogenic bacteria.
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Ahmad R. Najafi (Mechanical Engineering & Mechanics, College of Engineering)
The research in the Multiscale Computational Mechanics and Biomechanics LAB (MCMB LAB) lies in the broad areas of numerical optimization, bio-inspired design, and computational modeling of the damage mechanisms of biological materials, encompassing a wide spectrum of methodologies ranging from micromechanics to multi-scale simulations.
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Dagmar Niebur (Electrical and Computer Engineering, College of Engineering)
Transmission Line Thermal Modeling and Power Flow using finite element analysis and high resolution weather data.
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Shae Padrick (Biochemistry & Molecular Biology, College of Medicine)
The Padrick lab uses Picotte for experiment driven numerical modeling of regulated actin dynamics.
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Christopher Wayne Peters (Electrical and Computer Engineering, College of Engineering)
Modeling of nuclear space propulsion thrusters.
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Ryan Petrie (Biology, College of Arts & Sciences)
Interested in using machine learning to predict cellular physical properties based on morphology from high-res images.
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Tristan Potter (School of Economics, LeBow College of Business)
I use high-frequency longitudinal data to study the determinants of individuals’ job search decisions during unemployment.
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Kathleen Powell (Criminology and Justice Studies, College of Arts & Sciences)
Increasingly, legal financial obligations - fines, fees, and costs - are levied against persons involved with the criminal justice system. This work will build an analytic dataset with detailed data on the assessment and repayment of legal financial obligations for persons facing criminal charges and probation punishment in Pennsylvania from 2012-2017.
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Gordon Richards (Physics, College of Arts and Sciences)
Simulations of variable astrophysical sources in preparation for first-light of the Large Synoptic Survey Telescope (LSST) in 2021.
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Gabriele Romano (Pharmacology and Physiology, College of Medicine)
Research in the Romano lab is focused on studying cancer drug resistance using a conjunction of mouse modeling, functional genomics and computational biology. We study intrinsic and acquired molecular mechanisms by which tumor cells resist targeted and/or immunotherapy approaches, with the final aim of developing novel therapeutic strategies for cancer patients.
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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.
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Jacob Russell (Biology, College of Arts and Sciences)
We perform metagenomic analyses to elucidate the functions of symbiotic gut bacteria from ants.
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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.
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Brisa N. Sánchez (Epidemiology and Biostatistics, Dornsife School of Public Health)
Development and innovative application of statistical methodology to the study of environmental determinants of health, and health disparities, including measurement of multi-dimensional, spatially indexed exposures and their health impact.
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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.
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Jeremiah Scepaniak (Chemistry, College of Arts and Sciences)
We are using quantum chemical calculations to map the orbitals of coordination
complexes prepared in our lab to gain insight into their electronic structure.
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Alina Schnake-Mahl (Urban Health Collective, Dornsife School of Public Health)
Evaluation of the high-performance computing at the Drexel URCF as a potential solution for storage and computing for NIH funded project using data from the Health Care Cost and Utilization Project (HCUP).
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Lindsay Shea (Policy and Analytics Center, A. J. Drexel Autism Institute)
The mission of the Policy and Analytics Center is to utilize research methods and innovative analytic strategies to support the development of effective social and health policy in cities, states, and across the U.S.
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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.
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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.
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Karl Sohlberg (Chemistry, College of Arts and Sciences)
Theoretical and Computational Physical and Materials Chemistry, including first principles studies of: catalytic materials, kinetics and thermodynamics of hydrogen in catalytic materials, and surfaces of heterogeneous catalysts. Development of theoretical models for both electrical and mechanical molecular devices.
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Srinivas Somarowthu (Biochemistry and Molecular Biology, College of Medicine)
Phylogenetic analysis of long non-coding RNAs.RNA-Seq data analysis
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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.
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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.
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Kara Spiller (School of Biomedical Engineering, Science and Health Systems)
The goal of the Biomaterials and Regenerative Medicine Laboratory at Drexel University is to understand the mechanisms by which the inflammatory response orchestrates successful tissue regeneration and to develop novel biomaterial strategies that apply these principles to situations in which tissue regeneration is impaired.
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Loni Philip Tabb (Epidemiology and Biostatistics, Dornsife 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.
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Tein-Min Tan (Mechanical Engineering & Mechanics, College of Engineering)
Residual strength analysis of cyclic-loaded beam structures, representative of typical aircraft wing or stabilizer components, containing various damage scenarios and repaired by composite patches.
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James Tangorra (Mechanical Engineering and Mechanics, College of Engineering)
CFD simulations of flexible fins and flipped will be conducted to understand the forces and flows that occur during steady swimming and maneuvers.
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Baris Taskin (Electrical and Computer Engineering, College of Engineering)
Discovery of effective combination therapies for cancer is a daunting task due to the complexity of drug response landscapes. Systematic approaches are needed to identify adaptive responses, reveal drug-induced vulnerabilities, and thus enable discovery of effective rational combination therapies.
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Amy Throckmorton (School of Biomedical Engineering, Science and Health Systems)
As a new innovative treatment strategy for patients with congestive heart failure, we are developing a unique a unique hybrid-design, continuous flow, implantable, magnetically levitated, TAH (Dragon Heart), and we employ the URCF resources to perform computational studies of design optimization.
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Dmitri Vainchtein (Nyheim Plasma Institute at Drexel)
Research outline: To quantify the nonlinear wave-particle interaction in the Earth's magnetosphere, we will study a lot of test particle trajectories in
the presence of the stationary magnetic field and multiple electromagnetic waves. This project is sponsored by NASA through the HSR program.
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Jörn Venderbos (Physics, College of Arts and Sciences)
Theory of quantum materials: topological Insulators, topological semimetals, materials prediction and design, strongly correlated electron materials, complex electronic ordering phenomena, unconventional superconductors
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Michael S. Vogeley (Physics, College of Arts and Sciences)
Including Radiation in Simulations of Black Hole Accretion Disks.
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Jurij Volčič (Mathematics, College of Arts and Sciences)
This work advances real algebraic geometry and noncommutative polynomial optimization in operator variables, develops optimization algorithms based on semidefinite programming, and provides applications to quantum information.
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Catherine von Reyn (School of Biomedical Engineering, Science and Health Systems)
Cell type-specific genetic engineering, whole-cell patch clamp in behaving animals, modeling, and detailed behavioral analysis to identify and characterize sensorimotor circuits.
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Rosina Weber (Information Science, College of Computing and Informatics)
Additive feature attribution methods (AFAM) model the region around classified testing instances for purposes of explainability. We investigate an AFAM augmented approach to train a binary classifier to diagnose pneumothorax based on ultrasound videos.
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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 Picotte to analyze various next generation DNA sequencing libraries for our research.
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Hugo Woerdeman (Mathematics, College of Arts & Sciences)
This work pursues algorithms for the inverse eigenvalue problem where Hermitian matrices are sought with prescribed spectrum as well as prescribed spectrum for their sum.
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Ming Xiao (Biomedical Engineering, School of Biomedical Engineering, Science and Health Systems)
Whole genome mapping and sequencing for human genomic structural variation analysis.
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Kaidi Xu (Computer Science, College of Computing and Informatics))
In this work, we are investigating Temporal Attention Re-averaging Adversarial Training. The exploited adversarial examples are created by perturbing the original examples in the direction of generating uniform attention distributions among video volumes.
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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.
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The following non-Drexel users are using our facility as part of the Philadelphia HPC Consortium:
Sara Mathieson (Computer Science, Haverford College)
We are working on developing algorithms for automatic inference from genetic data. Specifically, our current approaches utilize graph-based and machine learning algorithms to learn about both recent and ancient evolutionary events in human history.
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Robi Polikar (Electrical & Computer Engineering, Rowan University)
Analysis of large volume metagenomic data for incremental and semi-supervised learning of nucleotide and protein sequences.
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Xiaodong Qu (Swarthmore College, Computer Science)
We develop new machine learning and deep learning algorithms to help better
understand how the human brain and computers can work better together.
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The following faculty currently have hardware hosted in the URCF: