Computational Methodologies

Dennis Barbour’s research interests include auditory processing, cognitive neuroscience, machine learning and medical informatics. Most recently he has developed new machine learning methods for rapidly and thoroughly evaluating perception and cognition. These new tests are not only useful for exploring normal nervous system function, but also for diagnosing disorders. The principles contributing to these successful diagnostics may also lead to effective neurotherapeutics, alone or when coupled with drug or device therapies.

Janine Bijsterbosch’s multidisciplinary background combines advanced computational MRI analysis tools with experience in clinical applications such as depression and anxiety. She heads the Personomics Lab, which aims to understand how brain connectivity patterns differ from one person to the next, by studying the “personalized connectome.” Using population datasets such as the UK Biobank, the lab adopts cutting-edge analysis techniques to study functional connectivity networks and their role in behavior, performance, mental state, disease risk, treatment response and physiology.

Michael Brent’s research lab is developing and applying mathematical and computational methods for mapping gene regulation networks, modeling them quantitatively, and synthesizing new network designs in living cells. This work includes basic research aimed at understanding how cells process and respond to information as well as applications to the study of infectious disease and the study of human genetics. See the lab webpage, https://mblab.wustl.edu for more information on their research.

Yixin Chen's research interests are in the general areas of nonlinear optimization, artificial intelligence, data warehousing and data mining. He is particularly interested in large-scale constrained nonlinear optimization in discrete, continuous and mixed-integer spaces.

Our group studies how information encoded in the human genome specifies when, where, and to what levels genes are expressed. We seek to understand the features of DNA sequences that control how genes are expressed. To this end, we are borrowing techniques from artificial intelligence to model how strings of short DNA sequences interact to form larger functional units that control gene expression.

Professor Garnett's main research interest is developing new Bayesian machine-learning techniques for sequential decision making under uncertainty.

Aimilia Gastounioti’s research combines elements of image analysis, machine learning/artificial intelligence, and informatics to build technologies with a potential for clinical impact in advancing breast cancer screening and prevention. She heads the Breast Image Computing Lab, that brings together a multidisciplinary team of scientists and physicians with the aim to advance computational breast imaging research.

Professor Gill's research focuses on assuring properties of distributed real-time and embedded systems in which software complexity, unpredictable environments, and heterogeneous platforms demand novel solutions that are grounded in sound theory.

Roch is widely recognized for his contributions to understanding the fundamentals of data network design and how networks can be designed to provide desired quality of service guarantees.

Professor Ho's research centers on the design and analysis of human-in-the-loop systems, with a focus on eliciting and aggregating human-generated data.

Jiaxin Huang’s research broadly lies in the intersection of natural language processing and machine learning. She is especially interested in understanding the properties of language models and improving their training and inference, especially in a low-resource setting. Her current research focuses on improving the trustworthiness of language models with retrieval augmentation and uncertainty estimation, and developing methods to enhance the generic reasoning ability of language models.

Nathan Jacob's research centers on developing learning-based algorithms and systems for extracting information from large-scale image collections. He has applied this expertise in many application domains, with a particular focus on geospatial and medical applications. He is a member of the Institute for Biomedical Informatics and owner of Multidomain Vision Research LLC, a research and software development firm that specializes in novel algorithms in computer vision, medical imaging and remote sensing.

Brendan Juba's work seeks to determine when and whether various integrated learning and inference tasks can be solved by efficient algorithms. Frequently, such an integrated task can be solved well in various respects even though the individual learning or inference tasks may be ill-posed or intractable. Beyond classical deductive inference tasks, this includes richer tasks such as context-specific inferences, and tasks to formulate plausible hypotheses, or conditions and/or subpopulations under which structures of interest appear in the given data. For example, this  includes problems of identifying conditions where data is fit well by a model from a given, simple family. He has also worked on a theory of communication without common standards.

Thomas Kannampallil’s research interests are at the intersection of computer science, cognitive science, and clinical informatics. Specifically, his research focuses on developing and evaluating computational tools using artificial intelligence tools for improving clinical decision making, physician well-being, and patient safety. His research is currently funded by National Institute of Aging, National Library of Medicine and Agency for Healthcare Research and Quality.

Gregory Kehne’s research centers on algorithm design and computational social choice, as well as problems at the intersection of computer science and economics more broadly. His work is particularly focused on voting rules and other methods for preference and judgement aggregation, leveraging theoretical and quantitative tools to both better understand how methods perform in practice and design new methods with provable guarantees.

Caitlin Kelleher is a researcher in Human-Computer Interaction and focuses on designing new kinds of programming environments and languages that democratize programming.

Shinjini Kundu, MD, PhD is a neuroradiologist and Assistant Professor of Radiology, with affiliate faculty appointments in Electrical Engineering and Biomedical Engineering at Washington University in St. Louis. Her lab develops new artificial intelligence approaches to revolutionize medical imaging. Her work has been published in journals such as Nature Medicine and Science Advances, and she was recognized on the MIT Technology Review's list of 35 innovators under 35. She holds a PhD in AI for medical imaging from Carnegie Mellon University and MD from University of Pittsburgh. She then completed her residency and fellowship in radiology at Johns Hopkins Hospital. Earlier, she obtained her BS and MS in electrical engineering from Stanford University. Her work stands to accelerate new precision medical diagnostic technologies capable of detecting diseases earlier, with greater accuracy and suggestions for tailored treatments.

Dr. Lai is the Deputy Director, Institute for Informatics (I²) and Chief Research Information Officer for the School of Medicine. He is also an Associate Professor of General Medical Sciences at the Washington University School of Medicine in St. Louis. He specializes in the development of research informatics infrastructure and is well recognized in the fields of clinical research informatics and consumer health informatics. His recent research has focused on the application of natural language processing, temporal reasoning and information fusion to generate a longitudinal computable phenotype to support clinical trial prescreening.

My lab works on nanoscale computational imaging, in which joint design and optimization of a hardware imaging system and software algorithms are essential for unlocking new capabilities for studying biology, chemistry, and physics at the nanoscale. My group, among other things, develops new computational tools for image reconstruction, as well as the reliability and statistical confidence of these reconstructions. Our methodologies fuse physics-based models and data-driven models to accomplish these tasks.

Prof. Jr-Shin Li works at the intersection of dynamical systems, control, and data science with broad applications ranging from biology and quantum physics to public health. His research is focused on control analysis, computation, optimization, and learning of high-dimensional complex systems. Current research projects at Prof. Li’s lab include the exploration and development of theory- and data-driven methods for controlling and analyzing population systems and complex networks, computational algebra and geometry approaches to learning dynamic structures and features from high-dimensional data, and topological data science and engineering techniques for data mining, reduction, and manifold learning.

Fangqiong Ling leads a computational and experimental lab to study bacterial colonization and transmission at the boundary of built and natural environments. She explores microbiomes as environmental sensors and public health sentinels.

Chenyang Lu's research interests include real-time embedded systems, wireless sensor networks, Internet of Things and cyber-physical systems.

Alvitta Ottley's current research interests include information visualization, human-computer interaction and visual analytics.

She has researched engineering approaches to pregnancy and women’s health for over twenty years, particularly in methods to prevent, diagnose, and intervene in preterm birth. Current research projects include multi-scale modeling of placenta function, microstructural fracture models for amniotic sac rupture, and physical properties of the healthy and pathological uterus.

Dr. Payne is the founding director of the Institute for Informatics (I²) at Washington University in St. Louis, where he also serves as the Robert J. Terry Professor and Professor of Computer Science and Engineering. He is an internationally recognized leader in the field of clinical research informatics (CRI) and translational bioinformatics (TBI). His research portfolio is actively supported by a combination of NCATS, NLM, and NCI grants and contracts, as well as a variety of awards from both nonprofit and philanthropic organizations.

Raviv joined the McKelvey School of Engineering from the California Institute of Technology on Oct. 1, 2019, where he was a Postdoctoral Researcher in the Department of Electrical Engineering. Previously, he was a Postdoctoral Researcher at Tel-Aviv University in Israel. During his PhD he interned at IBM, Microsoft, MIT and the University of Toronto. He is a recipient of the IBM PhD fellowship and the first prize in the Feder family competition for best student work in communication technology.

Sinopoli's research focuses on robust and resilient design of cyber-physical systems, networked and distributed control systems, distributed interference in networks, smart infrastructures, wireless sensor and actuator networks, cloud computing, adaptive video streaming applications and energy systems.

Aristeidis Sotiras, PhD, is focused on developing and applying machine learning and image analysis techniques to extract and integrate relevant information from images and other clinical data toward improving patient-specific diagnosis and prognosis.

The Tavoni laboratory develops theories and models to understand fundamental principles of brain function, from sensory coding to memory and decision making. We are particularly interested in studying how information representation and processing in brain networks is optimized to drive effective decisions in dynamic environments. Investigating these optimality principles is necessary to ultimately understand their disruptions in brain disease.

Yevgeniy Vorobeychik's work focuses on game theoretic modeling of security and privacy, adversarial machine learning, algorithmic and behavioral game theory and incentive design, optimization, agent-based modeling, complex systems, network science and epidemic control. 

Chenguang has broad interests in natural language processing and machine learning. His work focuses on techniques and systems for making NLP trustworthy in real-world settings. His recent work focuses especially on the zero- or few-shot learning performance, security, interpretability, robustness, ethics, and blockchain applications of deep learning models. He has created several open-source deep learning systems, including AutoGluon and GluonNLP. His research has been deployed in real-world scenarios ranging from science to industry.

My lab, integrated biomedical imaging lab (IBIL), focuses on developing novel imaging systems and clinically translating those imaging systems to solve clinical questions through extensive studies and trials. We develop and employ novel computation methods (e.g., conventional regularization methods and machine learning-based methods) to solve the inverse problem at the core of the imaging systems. In addition, we generate and have access to large clinical databases (imaging data and clinical data). We invest significant effort and resources into modern data science methods to extract and represent the hidden information in our images and data. We believe connecting IBIL with DCDS will bring mutual benefits to both parties.

Professor Yeoh’s research focuses on artificial intelligence with an emphasis on developing optimization algorithms for agent-based systems. His primary expertise is in distributed constraint optimization, where his goal is to develop and deploy such algorithms in multi-agent systems including smart grid and smart home applications as well as cloud and edge computing applications.

My research is focused on dataintegrated computational approaches for controlling complex dynamic systems. The approaches developed in my lab bridge rigorous systems theoretic frameworks with efficient computational tools from machine learning and computational mathematics.

Professor Zhang joined the Department of Computer Science & Engineering at Washington University in Fall 2018. Prior to that, he was a principal cyber engineer/researcher and technical lead at Cyber Security Innovations of Raytheon. Throughout his eleven-year career at Raytheon, he has worked to protect various critical networked and cyber-physical infrastructures.