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You are here: Home / Archives for Deep Machine Learning and Data Visualization

Peterson, Thomas

June 2, 2022 By Karen

Thomas A. Peterson, PhD

Digital and Computational Health Science

Application of statistical and computational methodologies to prospective and retrospective clinical datasets for finding meaningful statistical associations and creating state-of-the-art tools for precision medicine

Olshen, Adam

April 8, 2022 By Karen

Adam B. Olshen, PhD

Developing tools for the analysis of genomic data and identifying biomarkers in cancer

Dr. Olshen has helped develop tools in such area as DNA copy number, mutation hotspot detection, and integration of data from multiple genomic assays. He is currently developing biomarkers to predict cancer outcomes in pediatric cancers.

Rudrapatna, Vivek

January 10, 2022 By Karen

Vivek Rudrapatna, MD, PhD

The Real-World Evidence Laboratory

Our group uses a variety of machine learning and biostatistical methods, such as natural language processing, deep learning, and causal inference, to transform electronic health records data into real-world evidence on treatment effects.

Kornblith, Aaron

February 12, 2021 By Karen

Aaron Kornblith, MD

Accurate and Consistent Advanced Diagnostic Strategies for Injured Children

Dr. Kornblith is focused on novel diagnostic strategies to enhance the care of injured children. He uses
a modern data science framework to develop accurate, consistent, and interpretable advanced analytic
models for rapid detection of intra-abdominal bleeding using clinical decision rules, computer vision,
and device design.

Fragiadakis, Gabriela

February 10, 2021 By Karen

Gabriela K. Fragiadakis, PhD

Characterizing immune organization and patient immune state using single-cell methods

Dr. Fragiadakis’s research focuses on analyzing immune state in diverse sets of patient cohorts using high-dimensional single-cell technologies, including single-cell sequencing and CyTOF. She uses multi-modal data integration methods to evaluate patient differences and infer broader principles of immune organization.

Spitzer, Matthew

February 2, 2021 By Karen

Matthew H. Spitzer, PhD

Systems approaches to understand immune responses, particularly to cancer

We focus on understanding how the immune system coordinates responses with an emphasis on tumor immunology. We combine experimental and computational methods to understand how the immune system responds to tumors and to rationally initiate curative immune responses against cancer.

Feng, Jean

February 2, 2021 By Karen

Jean Feng, PhD

Developing reliable and interpretable machine learning algorithms for clinical decision making

Dr. Feng has developed machine learning and deep learning algorithms that accurately quantify their uncertainty and are appropriate for high dimensional datasets. Her current research is in developing safe machine learning algorithms that learn and recalibrate using streaming Electronic Health Records data.

Sarkar, Urmimala

December 16, 2020 By Karen

Urmimala Sarkar, MD, MPH

Innovating for Health Equity

Dr. Sarkar’s research focuses on: (1) Ambulatory patient safety, (2) Digital health innovations to improve the safety and quality of outpatient care, (3) Social media research for behavior change, (4) Safety-net implementation of evidence-based digital health in real-world settings.

Hswen, Yulin

September 2, 2020 By Karen

Yulin Hswen, ScD

Social and Computational Epidemiology

Dr. Hswen current research seeks to identify authentic attitudes, feelings and beliefs that influence behaviors and drive populations. Through the collection of unconventional and underground online social networks, Dr. Hswen captures unfiltered conversations to further understand the connections between social experiences and health.

Yao, Keluo

September 2, 2020 By Karen

Keluo Yao, MD

Improving Research and Operational Software for Laboratory Medicine

Pathology and laboratory medicine provide 70% of the information in most patient care settings. Therefore, using the best software is the best way to deliver that information to the clinicians on the front lines. I am interested in developing these software solutions by utilizing the best practices from the cutting edge artificial intelligence technologies to traditional methods.

Ushizima, Daniela

April 16, 2020 By Karen

Daniela Ushizima, PhD

Algorithms for Multimodal and N-Dimensional Imaging Experiments

Dr. Ushizima research focuses on computer vision algorithms for monitoring diseases progression while exploring information from multiple imaging techniques. Together with Grinberg’s lab, developed quantitative histological analysis of whole human brains using multiple instruments.

Jiang, Fei

January 14, 2020 By Karen

Fei Jiang, PhD, MS

High quality statistical and computational publications focusing on addressing practical problems in the medical domain

Dr. Jiang’s research interest lies in machine learning methods, high dimensional models, functional data analysis and their applications in analyzing neurological, image, genetics data, and in designing adaptive randomization clinical trials. Her efforts yield high quality statistical and computational publications, which focus on addressing practical problems in the medical domain.

Scheffler, Aaron

January 14, 2020 By Karen

Aaron Scheffler, PhD, MS

Analysis of complex datasets to better understand biological systems and inform meaningful clinical decisions

Dr. Scheffler develops statistical methods for high-dimensional signals produced by his collaborators in neurology and orthopedics. The proper interrogation of this data will lead to improved health outcomes at both the patient and population level.

Abbasi-Asl, Reza

January 14, 2020 By Karen

Reza Abbasi-Asl, PhD

Interpretable machine learning to understand brain functions and related disorders

The Abbasi Lab aims to understand functions of the brain and related disorders by leveraging principles in machine learning and statistics. The lab studies large-scale single-cell level neurophysiological datasets as well as medical images and structured and unstructured healthcare data.

Rankin, Kate

October 18, 2019 By Karen

Kate Rankin, PhD

Building Strategic Clinical Informatics Tools to Bridge Precision Medicine Research and Patient Care

Dr. Rankin investigates the underpinnings of human socioemotional behavior in aging and neurodegenerative disease with quantitative brain imaging, and develops tools for harmonizing cross-disciplinary data and analytic processes to facilitate scientific collaboration and clinical care.

Glymour, Maria

October 18, 2019 By Karen

Maria Glymour, ScD, MS

Causal Inference, Artificial Intelligence and Health Research

Dr. Glymour is exploring approaches of causal inference methods for research on health inequalities, stroke, and Alzheimer’s disease and how Artificial Intelligence can accelerate health research.

Hong, Julian

October 17, 2019 By Karen

Julian Hong, MD, MS

Developing and implementing computational tools in oncology to improve patient care

Dr. Hong’s research program focuses on combining clinical domain knowledge with data science to generate insights from real world data, develop actionable computational tools, and evaluate the benefit of these advances in personalized cancer care.

Li, Jingjing

October 17, 2019 By Karen

Jingjing Li, PhD

From Big Data to Big Mind: Building Data-Driven Frameworks to Solve Complex Diseases

The main theme of our research is large-scale analysis of disease genomes by integrating multi-omics data, evolutionary insights, electronic health records, as well as digitized clinical traits from imaging and wearable sensor readouts. The ultimate goal is to build data-driven frameworks to detect diseases before symptoms emerge and to achieve precision health management.

Tison, Geoff

August 7, 2019 By Karen

Geoff Tison, MD, MPH

Applying machine learning and deep-learning techniques to large-scale electronic health data

Dr. Tison applies machine learning and deep-learning techniques to large-scale electronic health data from heterogeneous sources in order to achieve the goal of personalized cardiovascular prognosis and disease prevention.

Rosner, Benjamin

August 5, 2019 By Karen

Benjamin Rosner, MD, PhD

Understand use of CLIIR to improve quality and value of healthcare

Audit-log data captures moment to moment clinical care processes within EHR. It makes these labor-intensive approaches obsolete, providing more comprehensive data faster with more accuracy. Taking this audit-log data and combining it with clinical data enables us to research the impact of provider workflows, behaviors and interactions with the EHR on patient outcomes.

Whooley, Mary

June 24, 2019 By Karen

Mary Whooley, MD

Learning Health Systems & Cardiovascular Outcomes Research

Dr. Whooley’s work focuses on applying the methods of health services research (including data science, implementation science, and program evaluation) to accelerate the adoption of evidence-based practices within the context of a national learning healthcare system. One of her specific interest areas is in the domain of cardiovascular health outcomes.

Larson, Peder

June 24, 2019 By Karen

Peder Larson, PhD

Developing new MRI scanning and reconstruction technology for improved clinical outcomes

Dr. Larson’s research program focuses on developments aimed at several applications: Metabolic imaging methods using hyperpolarized carbon-13 MRI; Semi-solid tissue MRI, for imaging of tendons, cortical bone, myelin, and lung tissue; and PET/MRI systems that combine the exceptional soft-tissue contrast of MRI with the functional contrast of PET.

Seo, Youngho

November 9, 2018 By Karen

Youngho Seo, PhD

Using quantitative SPECT/CT, PET/CT, and PET/MR molecular imaging tools for a broad range of research areas

Dr. Seo applies his expertise in radionuclide and x-ray imaging physics and instrumentation to develop quantitative imaging techniques for everything from small animal research to analysis of clinical research data.

Pedoia, Valentina

November 9, 2018 By Karen

Valentina Pedoia, PhD

Using machine learning to extract features from MRI to study degenerative joint disease

Dr. Pedoia develops analytics to model the complex interactions between morphological, biochemical and biomechanical aspects of the knee joint as a whole; deep learning convolutional neural network for musculoskeletal tissue segmentation and for the extraction of silent features from quantitative relaxation maps for a comprehensive study of the biochemical articular cartilage composition; with ultimate goal of developing a completely data-driven model that is able to extract imaging features and use them to identify risk factors and predict outcomes for Osteoarthritis.

Hess, Christopher

March 10, 2018 By Karen

Christopher Hess, MD, PhD

Developing and translating biomedical imaging to diagnose and treat neurological disease

Dr. Hess’s research interests lie in the development and translational application of magnetic resonance imaging techniques for diagnosis and treatment monitoring in neurologic disease. His scientific background is in MRI acquisition, reconstruction and image analysis, focusing on diffusion and high-field MRI. His primary clinical interests are in neurovascular disease, dementia, brain development, and epilepsy.

Arnaout, Rima

February 20, 2018 By Karen

Rima Arnaout, MD

Improving the resolution and accuracy of cardiovascular phenotypes to develop novel insights and therapies

Dr. Arnaout’s lab is currently developing computational methods to bring precision phenotyping to echocardiography, and also using the zebrafish animal model to study cardiovascular developmental gene function and to model human cardiovascular disease.

Raj, Ashish

February 20, 2018 By Karen

Ashish Raj, PhD

Mathematical modeling and data science in neurology and radiology

Ashish’s team develops novel image processing and analysis algorithms for MRI. His lab also works to model brain connectivity networks using graph theory, and investigates how these networks are disrupted with disease and trauma.

Grinberg, Lea

July 14, 2017 By Karen

Lea Grinberg, MD, PhD

Computational approaches to imaging the human brain at the macro and micro level

The Grinberg Lab processes whole human brains for state-of-the-art quantitative histological analysis, digitize all of the results, and precisely registers to MRI. They are developing advanced tools for analysis of microscopic images that enable more comprehensive and higher-throughput studies of human brain tissue.

Tosun, Duygu

February 27, 2017 By Karen

Duygu Tosun, PhD

Developing algorithmic approaches for multi-modal data analysis

Dr. Tosun develops new algorithmic approaches for processing and analysis of multi-disciplinary/modal data including neuroimages, genetics, proteomics, as well as cognitive functioning measures in a unified framework. The primary aim is to identify multi-disciplinary/modality biomarkers for detecting the changes associated with disease specific neuropathology, improving understanding of pathophysiological progression and potentially providing a means of monitoring the efficacy and regional specificity of drug therapy for neurodegenerative diseases.

Majumdar, Sharmila

February 27, 2017 By Karen

Sharmila Majumdar, PhD

Developing image processing and analytics for musculoskeletal research

Dr. Majumdar’s research work on imaging, particularly magnetic resonance and micro computed tomography, and development of image processing and analysis tools, has been focused in the areas of osteoporosis, osteo-arthritis and lower back pain. Her research is diverse, ranging from technical development to clinical trials.

Nagarajan, Srikantan

January 12, 2017 By Karen

Srikantan Nagarajan, PhD

Brain imaging analysis and brain computer interfaces for diagnosis and assessment in various patient populations

Dr. Nagarajan has multiple research interests, including understanding human brain plasticity associated with learning and disease, and determining neural mechanisms of controlling speech. He focuses on the development and refinement of multimodal structural and functional brain imaging and brain computer interfaces, for diagnosis and assessment in various patient populations. His current translational research program includes conducting multimodal brain imaging studies in people with Autism, Dementia, Tinnitus, Brain Tumors, Epilepsy, Traumatic Brain Injury, Stroke and Voice Disorders.

Lupo, Janine

January 12, 2017 By Karen

Janine Lupo, PhD

Developing novel methods for MRI data collection and analysis in neurological research

Dr. Lupo is focused on developing novel methods for acquisition, reconstruction, post-processing, and quantitative analysis of magnetic resonance brain images. Using a combination of multiparametric structural, physiological, and metabolic MRI techniques, her goal is to quantitatively characterize heterogeneity within malignant brain tumors, monitor response to novel treatment regimens, and investigate the long-term effects of therapy on healthy brain tissue structure and cognitive function. Many of the methodologies we develop initially to evaluate patients with brain tumors are also being applied to other neurological diseases.

Xu, Duan

January 12, 2017 By Karen

Duan Xu, PhD

Developing new MRI techniques

Dr. Xu’s research focuses on investigating new MRI techniques with primary applications in pediatric neuroradiology. Another research focus is the development of new techniques on ultrahigh field MR scanners for small animal imaging, both in vivo and ex vivo. Techniques include high resolution MR anatomic, diffusion, and spectroscopy are being developed in collaboration with various colleagues in Neurodevelopment Biology, Neurology, Pediatrics, Neonatology, and Physiology.

Segal, Mark

September 7, 2016 By Karen

Mark Segal, PhD

Development and application of statistical methods to address problems in computational biology and genomics

Dr. Segal has devised methods for addressing several aspects of analyzing data deriving from high-throughput biotechnologies, straddling low-level (e.g., pre-processing) to high-level (e.g., linked survival phenotypes, regulatory module elicitation) approaches. He is currently engaged in developing and comparing methods for inferring 3D genome architecture utilizing data from chromatin conformation capture assays.

Seeley, William

September 7, 2016 By Karen

William Seeley, MD

Selective vulnerability in neurodegenerative disease

The Seeley Lab uses advanced neuroimaging techniques to map the specific neural networks and regions targeted early in each neurodegenerative disease. The patterns of network- and region-level vulnerability serve as maps for exploring cellular and molecular pathogenesis with quantitative neuropathological approaches. The lab’s research relies on the visualization and analysis of very large datasets using increasingly sophisticated modeling approaches. Overall, the lab seeks to clarify mechanisms of selective vulnerability and disease progression in order to develop novel therapeutic strategies and tools for monitoring change in patients during life.

Ye, Jimmie

June 16, 2016 By Karen

Jimmie Ye, PhD

Building new experimental and computational approaches to generate and interpret human biological data

This collaborative team of data scientists, computational biologists and genome detectives, have a shared vision —a fundamental understanding of human biology with an eye to improving human health. See website

Keiser, Michael

June 16, 2016 By Karen

Michael Keiser, PhD

Small molecule therapeutics with protein network perturbations

In classical pharmacology, drugs struck single notes, where one drug would hit one target to treat one disease. But drugs frequently modulate entire target “chords” at once, and this can be essential to their action. The Keiser lab is decoding this molecular music, both in terms of new and useful chords for the treatment of complex diseases, and also to identify the jarring notes that existing drugs unintentionally hit when they induce side effects. Michael is also uncovering the biological roots of Alzheimer’s disease.

Altschuler, Steven and Wu, Lani

June 16, 2016 By Karen

Steven Altschuler, PhD and Lani Wu, PhD

Fundamentals in Cellular Heterogeneity Using Quantitative Techniques

The Altschuler-Wu lab investigates fundamental questions about the origins and impact of cellular heterogeneity in collective cellular decision making, tissue development and homeostasis. Results from our studies are applied to investigate mechanisms of drug resistance, cancer evolution and new therapeutic strategies. A common theme is the combined use of single-cell perturbation assays, quantitative imaging, data-driven modeling and theory.

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