Graduate

PhD program faculty by research area

Central to the BME PhD program is the requirement for students to seek out faculty with whom they share common research interests to discuss research opportunities prior to their second year.

Biomedical Data Science

Associated Faculty
  • Joel Bader, PhD
    Bioinformatics and computational biology
  • Adam Charles, PhD
    Data science, signal processing, machine learning, computational neuroscience, computational imaging, cybernetics
  • Nicholas Durr, PhD
    Medical imaging, image analysis, biophotonics, endoscopy, microscopy, and medical device design
  • Reza Kalhor, PhD
    Synthetic biology, molecular recording, genome engineering, developmental biology, neuroscience
  • Rachel Karchin, PhD
    Genetic variation, somatic mutations, tumor evolution, computational immuno-oncology
  • Justus Kebschull, PhD
    Brain circuit evolution, comparative connectomics & transcriptomics, viral engineering, neuro tool development
  • Michael Miller, PhD
    Data science, computational neuroscience, medical imaging, computational anatomy, pattern theory
  • Tilak Ratnanather, DPhil
    Biomedical imaging, brain mapping, computational anatomy, computational medicine, cochlear implants
  • Steven Salzberg, PhD
    Computational biology, genomics, DNA sequence analysis, metagenomics, sequencing technology
  • Sridevi Sarma, PhD
    Computational neuroscience, estimation and control theory, applications to disorders of the central nervous system and brain machine interfaces
  • Jeff Siewerdsen, PhD
    Medical imaging, image-guided surgery, surgical robotics, surgical navigation, radiation therapy, radiology, computed tomography (CT), cone-beam CT (CBCT), x-ray detectors, image quality, radiation dose, neural networks, machine learning, artificial intellegence, multi-modality imaging, image registration
  • Jeremias Sulam, PhD
    Inverse problems in computer vision and signal processing, dictionary learning, machine learning and deep learning and their application to biomedical problems
  • Winston Timp, PhD
    Development and application of sequencing technologies to explore biology and diagnose disease
  • Natalia Trayanova, PhD
    Computational cardiaciology, arrhythmias in the diseased heart and anti-arrhythmia therapies, reconstruction of heart geometry and structure from MRI
  • Rene Vidal, PhD
    Machine learning, computer vision, biomedical data science, medical image analysis
  • Joshua Vogelstein, PhD
    Big data science, machine learning, statistics, network science
  • Raimond Winslow, PhD
    Computational modeling of the cardiac myocyte to understand the molecular basis of arrhythmias; machine learning in critical care medicine to identify those patients who require urgent care

Computational Medicine

Associated Faculty
  • Siamak Ardekani, PhD
    Computational medical imaging, MRI, developing image-based statistical shape and function models for early disease detection, monitoring response to therapy, and validating new therapeutic strategies in neurological and cardiovascular diseases
  • Joel Bader, PhD
    Bioinformatics and computational biology
  • Adam Charles, PhD
    Data science, signal processing, machine learning, computational neuroscience, computational imaging, cybernetics
  • Reza Kalhor, PhD
    Synthetic biology, molecular recording, genome engineering, developmental biology, neuroscience
  • Rachel Karchin, PhD
    Genetic variation, somatic mutations, tumor evolution, computational immuno-oncology
  • Feilim Mac Gabhann, PhD
    Computational modeling of growth factor-receptor networks, personalized medicine, therapeutic cardiovascular remodeling, novel methods for data visualization and automated image analysis
  • Michael Miller, PhD
    Data science, computational neuroscience, medical imaging, computational anatomy, pattern theory
  • Aleksander Popel, PhD
    Systems biology, computational biology, computational medicine, angiogenesis, cancer, immuno-oncology, cancer immunotherapy, quantitative systems pharmacology, peripheral arterial disease
  • Tilak Ratnanather, DPhil
    Biomedical imaging, brain mapping, computational anatomy, computational medicine, cochlear implants
  • Sridevi Sarma, PhD
    Computational neuroscience, estimation and control theory, applications to disorders of the central nervous system and brain machine interfaces
  • Natalia Trayanova, PhD
    Computational cardiaciology, arrhythmias in the diseased heart and anti-arrhythmia therapies, reconstruction of heart geometry and structure from MRI
  • Joshua Vogelstein, PhD
    Big data science, machine learning, statistics, network science
  • Raimond Winslow, PhD
    Computational modeling of the cardiac myocyte to understand the molecular basis of arrhythmias; machine learning in critical care medicine to identify those patients who require urgent care

Genomics & Systems Biology

Associated Faculty
  • Joel Bader, PhD
    Bioinformatics and computational biology
  • Alexis Battle, PhD
    Genomics and machine learning
  • Michael Beer, PhD
    Computational regulatory genomics
  • Patrick Cahan, PhD
    Computational and experimental exploration of gene regulatory networks in development, stem cell engineering, tumorigenesis and cancer progression
  • Andrew Feinberg, MD, MPH
    Epigenetics of development and disease, stochasticity in development and cancer
  • Taekjip Ha, PhD
    High resolution single molecule and single cell analysis technologies
  • Reza Kalhor, PhD
    Synthetic biology, molecular recording, genome engineering, developmental biology, neuroscience
  • Rachel Karchin, PhD
    Genetic variation, somatic mutations, tumor evolution, computational immuno-oncology
  • Justus Kebschull, PhD
    Brain circuit evolution, comparative connectomics & transcriptomics, viral engineering, neuro tool development
  • Feilim Mac Gabhann, PhD
    Computational modeling of growth factor-receptor networks, personalized medicine, therapeutic cardiovascular remodeling, novel methods for data visualization and automated image analysis
  • Mihaela Pertea, PhD
    Gene finding and annotation, alternative splicing, transcriptome assembly from RNA-sequencing data
  • Aleksander Popel, PhD
    Systems biology, computational biology, computational medicine, angiogenesis, cancer, immuno-oncology, cancer immunotherapy, quantitative systems pharmacology, peripheral arterial disease
  • Steven Salzberg, PhD
    Computational biology, genomics, DNA sequence analysis, metagenomics, sequencing technology and computational biology
  • Jamie Spangler, PhD
    Structural and molecular immunology, protein engineering, therapeutic antibody discovery and design, targeted drug development
  • Winston Timp, PhD
    Development and application of sequencing technologies to explore biology and diagnose disease
  • Kevin Yarema, PhD
    Biotechnology and clinical aspects of carbohydrate engineering

Imaging & Medical Devices

Associated Faculty
  • Soumyadipta Acharya, PhD
    Global health, instrumentation and medical devices, machine learning, signal processing
  • Siamak Ardekani, PhD
    Computational medical imaging, MRI, developing image-based statistical shape and function models for early disease detection, monitoring response to therapy, and validating new therapeutic strategies in neurological and cardiovascular diseases
  • Adam Charles, PhD
    Data science, signal processing, machine learning, computational neuroscience, computational imaging, cybernetics
  • Nicholas Durr, PhD
    Medical imaging, image analysis, biophotonics, endoscopy, microscopy, and medical device design
  • Taekjip Ha, PhD
    High resolution single molecule and single cell analysis technologies
  • Tim Harris, PhD
    Technology for very high channel count recording and stimulation of brain activity in rodents and non-human primates
  • Scot Kuo, PhD
    Instrumentation and image analysis for fluorescence, confocal, and electron microscopes; Super-resolution microscopy; Microscopy of living cells; Cell migration and motility
  • Xingde Li, PhD
    Medical imaging and biophotonics
  • Michael Miller, PhD
    Data science, computational neuroscience, medical imaging, computational anatomy, pattern theory
  • Tilak Ratnanather, DPhil
    Biomedical imaging, brain mapping, computational anatomy, computational medicine, cochlear implants
  • Jeffrey Siewerdsen, PhD
    Medical imaging, image-guided surgery, surgical robotics, surgical navigation, radiation therapy, radiology, computed tomography (CT), cone-beam CT (CBCT), x-ray detectors, image quality, radiation dose, neural networks, machine learning, artificial intellegence, multi-modality imaging, image registration
  • J. Webster Stayman, PhD
    Medical imaging, device design and optimization, adaptive imaging, computational imaging, task-based acquisition, reconstruction, machine learning, and estimation theory
  • Nitish Thakor, PhD
    Medical instrumentation, neuroengineering, neural signal processing and clinical instrumentation, micro/nano scale sensors, devices and systems
  • Joshua Vogelstein, PhD
    Big data science, machine learning, statistics, network science
  • Youseph Yazdi, PhD
    Healthcare design, global health innovation, technology commercialization, medical devices, design education, clinical innovation
  • Wojciech B. Zbijewski, PhD
    Medical imaging, modeling and evaluation of imaging systems, CT algorithms, quantitative CT and cone-beam CT, imaging biomarkers of bone and joint health, musculoskeletal radiology

Immunoengineering

Associated Faculty
  • Joshua Doloff, PhD
    Immunoengineering, regenerative medicine, biomaterials/biomedical devices, controlled drug delivery, synthetic and systems biology, and automimmune, cancer, and infectious disease models
  • Jennifer Elisseeff, PhD
    Regenerative immunology, biomaterials, aging, single cell analysis, regenerative medicine
  • Jordan Green, PhD
    Cellular engineering, nanobiotechnology, biomaterials, drug delivery, gene therapy, immunotherapy
  • Rachel Karchin, PhD
    Genetic variation, somatic mutations, tumor evolution, computational immuno-oncology
  • Feilim Mac Gabhann, PhD
    Computational modeling of growth factor-receptor networks, personalized medicine, therapeutic cardiovascular remodeling, novel methods for data visualization and automated image analysis
  • Aleksander Popel, PhD
    Systems biology, computational biology, computational medicine, angiogenesis, cancer, immuno-oncology, cancer immunotherapy, quantitative systems pharmacology, peripheral arterial disease
  • Jamie Spangler, PhD
    Structural and molecular immunology, protein engineering, therapeutic antibody discovery and design, targeted drug development
  • Kevin Yarema, PhD
    Biotechnology and clinical aspects of carbohydrate engineering

Neuroengineering

Associated Faculty
  • Adam Charles, PhD
    Data science, signal processing, machine learning, computational neuroscience, computational imaging, cybernetics
  • Vikram Chib, PhD
    Decision-making, movement, computation, functional brain imaging, noninvasive brain stimulation
  • Kathleen Cullen, PhD
    Neural prosthesis and rehabilitation, computational neuroscience, multisensory integration for action and perception, motor learning
  • Tim Harris, PhD
    Technology for very high channel count recording and stimulation of brain activity in rodents and non-human primates
  • Patrick Kanold, PhD
    Systems neuroscience, brain development, in vivo imaging, neuroengineering, neurophysiology
  • Justus Kebschull, PhD
    Brain circuit evolution, comparative connectomics & transcriptomics, viral engineering, neuro tool development
  • Xingde Li, PhD
    Medical imaging and biophotonics
  • Michael Miller, PhD
    Data science, computational neuroscience, medical imaging, computational anatomy, pattern theory
  • Tilak Ratnanather, DPhil
    Biomedical imaging, brain mapping, computational anatomy, computational medicine, cochlear implants
  • Sridevi Sarma, PhD
    Computational neuroscience, estimation and control theory, applications to disorders of the central nervous system and brain machine interfaces
  • Reza Shadmehr, PhD
    Neural control of movements in human and non-human primates, computational neuroscience
  • Nitish Thakor, PhD
    Medical instrumentation, neuroengineering, neural signal processing and clinical instrumentation, micro/nano scale sensors, devices and systems
  • Joshua Vogelstein, PhD
    Big data science, machine learning, statistics, network science
  • Xiaoqin Wang, PhD
    Neurophysiology of the auditory cortex, neural mechanisms of speech perception and learning, computational neuroscience
  • Kechen Zhang, PhD
    Theoretical and computational neuroscience, neural computation

Translational Cell & Tissue Engineering

Associated Faculty
  • Kenneth Boheler, PhD
    Pluripotent stem cell biology and their differentiation to cardiovascular lineages, molecular biology, transcriptomics and proteomics, and the applications of immunophenotyped cells for drug re-purposing, biomedical engineering, and disease modeling
  • Patrick Cahan, PhD
    Computational and experimental exploration of gene regulatory networks in development, stem cell engineering, tumorigenesis and cancer progression
  • Joshua Doloff, PhD
    Immunoengineering, regenerative medicine, biomaterials/biomedical devices, controlled drug delivery, synthetic and systems biology, and automimmune, cancer, and infectious disease models
  • Jennifer Elisseeff, PhD
    Regenerative immunology, biomaterials, aging, single cell analysis, regenerative medicine
  • Warren Grayson, PhD
    Bone and skeletal muscle regeneration, stem cells, biomaterials, 3D-printing, bioreactors, animal models
  • Jordan Green, PhD
    Cellular engineering, nanobiotechnology, biomaterials, drug delivery, gene therapy, immunotherapy
  • Reza Kalhor, PhD
    Synthetic biology, molecular recording, genome engineering, developmental biology, neuroscience
  • Deok-Ho Kim, PhD
    Stem cell engineering, tissue engineering, mechanobiology, biomaterials, biomedical microdevices
  • Feilim Mac Gabhann, PhD
    Computational modeling of growth factor-receptor networks, personalized medicine, therapeutic cardiovascular remodeling, novel methods for data visualization and automated image analysis
  • Aleksander Popel, PhD
    Systems biology, computational biology, computational medicine, angiogenesis, cancer, immuno-oncology, cancer immunotherapy, quantitative systems pharmacology, peripheral arterial disease
  • Jamie Spangler, PhD
    Structural and molecular immunology, protein engineering, therapeutic antibody discovery and design, targeted drug development
  • Leslie Tung, PhD
    Electrophysiology and arrhythmia of cardiac cell networks, cardiac tissue engineering, stem cell-derived heart cells, cardiac disease models
  • Kevin Yarema, PhD
    Biotechnology and clinical aspects of carbohydrate engineering