​Computational and Systems Biology Faculty

   
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  • Maxim Artyomov, Ph.D. - Systems immunology using high-throughput next-generation sequencing in conjunction with mathematical and statistical modeling approaches rooted in statistical physics
  • Megan T. Baldridge, M.D., Ph.D. - Defining the mechanisms behind and effects of the interactions between commensal bacteria, pathogens and innate immunity
  • Ivan Baxter, Ph.D. - We use High-thoughput elemental profiling to understand how plants adapt to their soil environment
  • Janine D. Bijsterbosch, Ph.D. - My research program focuses on studying connectivity networks in the human brain using advanced MRI imageanalysis methods
  • Arpita Bose, Ph.D. - Microbial metabolisms and their influence on biogeochemical cycling
  • Gregory R. Bowman, Ph.D. - The Bowman lab seeks to understand how protein dynamics gives rise to functional processes like allosteric communication between distant sites, and to exploit our insight into this shape-shifting to design new drugs and proteins.
  • Michael R. Brent, Ph.D. - Systems biology, transcriptional regulatory networks, network inference, yeast
  • Jeremy D. Buhler, Ph.D. - Developing algorithms and architectures for large-scale biosequence comparison, genome annotation, and metagenomics
  • Bruce A. Carlson, Ph.D. - Sensory and Evolutionary Neuroscience
  • Anders E. Carlsson, Ph.D. - Simulation and theory of force generation by actin polymerization
  • Shantanu Chakrabartty, Ph.D. - Exploring neuromorphic architectures using silicon and biological neurons; Novel self-powered neural recording systems
  • Aadel A. Chaudhuri, M.D., Ph.D. - Liquid biopsy cancer detection
  • Barak A. Cohen, Ph.D. - Genomic analyses of regulatory networks, Non-coding disease variants
  • Joseph C. Corbo, M.D., Ph.D. - (1) transcriptional networks in the retina; (2) the mechanistic basis of color vision; (3) the cis-regulatory basis of human uniqueness and neuropsychiatric disease
  • Sharon Cresci, M.D. - Genetic variation in the variable response to pharmacologic treatment (i.e. Pharmacogenomics) of cardiovascular disease; specifically individuals with both diabetes mellitus and coronary artery disease.
  • Gautam Dantas, Ph.D. - (1) Dynamics, ecology, and evolution of antibiotic resistance, (2) Engineering enhanced probiotics to treat GI disorders, (3) Engineering microbial biofuel catalysts
  • Li Ding, Ph.D. - Cancer genomics and proteomics
  • Joseph D. Dougherty, Ph.D. - Human Psychiatric Genetics, Mouse Models, Cell Type Specific Gene Expression Profiling, Translation, Astrocytes.
  • John R. Edwards, Ph.D. - Understanding epigenomic abnormalities in breast cancer
  • Bahaa E. El-Gendy, Ph.D. - Medicinal chemistry with a broad goal of drug design and organic synthesis
  • Jeffrey I. Gordon, M.D. - Role of the human gut microbiome in health and disease, notably childhood undernutrition and obesity
  • Malachi Griffith, Ph.D. - Improving our understanding of human disease biology and the development of personalized medicine strategies using genomics and informatics technologies
  • Obi L. Griffith, Ph.D. - Development of personalized medicine strategies for cancer using genomic technologies
  • Ira M. Hall, Ph.D. - We use high-throughput methods to study the causes and consequences of genome variation in mammals
  • Gabriel Haller, Ph.D. - Genetic underpinnings of multiple neurological/neurosurgical disorders
  • Oscar M. Harari, Ph.D. - Identification of "omics" (proteomic, transcriptomic and genetic) factors associated with neurodegeneration
  • Keith B. Hengen, Ph.D. - We take a "big data" approach to understanding the self-organization of neurons and networks in behaving animals.
  • Alex Holehouse, Ph.D. - Understand how function is encoded into disordered sequences using a combination of computational and experimental approaches
  • Timothy E. Holy, Ph.D. - Sensory processing and plasticity (olfaction), large-population calcium imaging, computation, social communication
  • Michael Hughes, Ph.D. - Our laboratory uses functional genomics to understand tissue specific gene expression in circadian rhythms, skeletal muscle, and lung disease
  • Benjamin D. Humphreys, M.D., Ph.D. - Define cell hierarchies in kidney injury and repair and thereby identify the critical cell types in kidney repair and fibrosis
  • Andrew L. Kau, M.D., Ph.D. - Understanding the immune-modifying capacity of gastrointestinal and airway microbes through the lens of allergy
  • Eynav Klechevsky, Ph.D. - Human Dendritic Cell biology and Novel vaccines
  • Sebla B. Kutluay, Ph.D. - Human immunodeficiency virus-host interactions
  • Albert M. Lai, Ph.D. - My research is in clinical research informatics, but I also have strong interest in other areas of clinical informatics, including usability of clinical and consumer-facing systems and mobile health
  • Michael J. Landis, Ph.D. - macroevolutionary questions in phylogenomics, biogeography, trait evolution, and statistical inference
  • Heather A. Lawson, Ph.D. - Integration of whole-genome sequence with phenotypic data to understand parent-of-origin genetic effects and gene-by-environment interactions
  • Fuhai Li, Ph.D. - Integrative large-scale pharmaco genomics analysis for target, signaling network, drug and drug combination discovery. Genomics data driven tumor-stromal communication discovery and modeling.
  • Jr-Shin Li, Ph.D. - Control and optimization of large-scale complex systems with applications ranging from quantum mechanics and neuroscience to bioinformatics
  • Fangqiong Ling, Ph.D. - A computational and experimental lab studying bacterial colonization and transmission at the boundary of built and natural environments and exploring microbiomes as environmental sensors and public health sentinels
  • Christopher Maher, Ph.D. - Understanding the role of long non-coding RNAs in solid tumors
  • Garland R. Marshall, Ph.D. - Molecular recognition is the key to drug design and the bioactive conformation.
  • Blake C. Meyers, Ph.D. - The function, biogenesis & evolution of small RNAs in plants
  • Rob Mitra, Ph.D. - Technology development for functional genomics and systems biology
  • Makedonka Mitreva, Ph.D. - Next-generation genomic and computational approaches to empower the study of infectious diseases and the human microbiome
  • Todd C. Mockler, Ph.D. - Research areas include crop genome sequencing and analysis, gene regulatory networks, plant abiotic stress responses, and high-resolution, high-throughput plant phenotyping
  • Shamim Mollah, Ph.D. - Interpret and distill the complexity of cancer and other rare diseases through integration of large scale multi-omics data
  • Tae Seok Moon, Ph.D. - Building the Future with Synthetic Biology
  • Samantha A. Morris, Ph.D. - Developing new single-cell technologies to create high-resolution maps of lineage and identity; Manipulating gene regulatory networks, via direct lineage reprogramming, to generate clinically valuable cell types
  • Shankar Mukherji, Ph.D. - Systems and synthetic cell biology: quantitative analysis of cellular organization
  • Guido Musch, M.D. - The molecular mechanisms that lead to ventilator-induced lung injury (VILI).
  • Arye Nehorai, Ph.D. - Quantitative statistical signal processing and imaging
  • Rohit V. Pappu, Ph.D. - Biophysics of intrinsically disordered proteins
  • Gary Patti, Ph.D. - To understand the metabolic crosstalk between cells and tissues in disease models such as cancer by using isotopes and metabolomics
  • Philip Payne, Ph.D., FACMI - Translational Bioinformatics, Clinical Research Informatics
  • Tim R Peterson, Ph.D. - genomics, metabolomics, and the quantified self in aging and mental health
  • Zachary Pincus, Ph.D. - Understanding inter-individual variability living systems
  • David W. Piston, Ph.D. - Studies of the Molecular Pathways of Islet Hormone Secretion
  • Jay W. Ponder, Ph.D. - Computational chemistry, protein engineering, theoretical protein structure and folding
  • Michael A. Province, Ph.D. - Mathematical development of new statistical genetics methodology for complex traits
  • Sid Puram, M.D., Ph.D. - Understanding the role of tumor heterogeneity in cancer biology, including its contributions to cancer development, growth, metastasis, and treatment resistance mechanisms, in order to translate these insights into new diagnostics and novel therapeutics
  • Barani Raman, Ph.D. - Systems analysis of neural information processing; bio-inspired sensors and algorithms
  • Eli Roberson, Ph.D. - Using bench molecular biology, high-throughput sequencing, and bioinformatics to understand human inflammatory / autoimmune disease.
  • Janice L. Robertson, Ph.D. - To understand how and why membrane proteins fold, form stable complexes, and achieve conformational stability inside of the oil-filled cell membrane.
  • Nancy L. Saccone, Ph.D. - Statistical genetics, complex human diseases, analysis methods
  • Kooresh Isaac Shoghi, Ph.D. - Multi-disciplinary research spanning biology of disease mechanisms, engineering and imaging sciences & informatics
  • Jonathan R. Silva, Ph.D. - Engineering to help cardiac arrhythmia patients feel better and live longer.
  • David H. Spencer, M.D., Ph.D. - My research program studies epigenetic gene regulation in cancer, with a specific emphasis on understanding how mutations in acute myeloid leukemia (AML) perturb the epigenome to alter gene expression and cause leukemia.
  • Nathan Stitziel, M.D., Ph.D. - We try understand the inherited basis underlying cardiovascular disease and leverage insights from our work to improve patient care.
  • Gary D. Stormo, Ph.D. - Computational biology, bioinformatics, protein-DNA interactions, gene regulation
  • Cristina de Guzman Strong, Ph.D. - Genomics of Skin Barrier: Development and Disease
  • S. Joshua Swamidass, M.D., Ph.D. - We computationally model drug metabolism to predict drug toxicity and design pediatric formulations.
  • Yinjie Tang, Ph.D. - Metabolism analysis and metabolic engineering of environmental microorganisms for biofuel/chemical production
  • Mikhail Tikhonov, Ph.D. - Theoretical physics of ecology and evolution; quantitative modeling; analysis of sequencing data
  • Christopher N. Topp, Ph.D. - Understanding the genetic basis of root growth and environmental plasticity using phenomics
  • Tychele N. Turner, Ph.D. - Discovery and characterization of genetic etiological factors involved in neurodevelopmental disorders
  • David Wang, Ph.D. - Discovery and Characterization of Novel Viruses
  • Ting Wang, Ph.D. - Epigenome evolution and epigenetic determinants of cell fate
  • Xiaowei Wang, Ph.D. - Combined computational and experimental analyses of microRNA functions
  • Fuzhong Zhang, Ph.D. - Synthetic biology for advanced biofuels, biomaterials, and chemicals.
  • Weixiong Zhang, Ph.D. - Computational approaches to elucidating transcriptional and post-transcriptional gene regulation underlying complex human diseases and plant stress tolerance
   
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