Samuel K Handelman, Ph.D., is Research Assistant Professor in the department of Internal Medicine, Gastroenterology, of Michigan Medicine at the University of Michigan, Ann Arbor. Prof. Handelman is focused on multi-omics approaches to drive precision/personalized-therapy and to predict population-level differences in the effectiveness of interventions. He tends to favor regression-style and hierarchical-clustering approaches, partially because he has a background in both statistics and in cladistics. His scientific monomania is for compensatory mechanisms and trade-offs in evolution, but he has a principled reason to focus on translational medicine: real understanding of these mechanisms goes all the way into the clinic. Anything less that clinical translation indicates that we don’t understand what drove the genetics of human populations.
Zhenke Wu is an Assistant Professor of Biostatistics, and a core faculty member in the Michigan Institute of Data Science (MIDAS). He received his Ph.D. in Biostatistics from the Johns Hopkins University in 2014 and then stayed at Hopkins for his postdoctoral training before joining the University of Michigan. Dr. Wu’s research focuses on the design and application of statistical methods that inform health decisions made by individuals, or precision medicine. The original methods and software developed by Dr. Wu are now used by investigators from research institutes such as CDC and Johns Hopkins, as well as site investigators from developing countries, e.g., Kenya, South Africa, Gambia, Mali, Zambia, Thailand and Bangladesh.
Profile: At a “sweet spot” of data science
By Dan Meisler
Communications Manager, ARC
If you had to name two of the more exciting, emerging fields of data science, electronic health records (EHR) and mobile health might be near the top of the list.
Zhenke Wu, one of the newest MIDAS core faculty members, has one foot firmly in each field.
“These two fields share the common goal of learning from the experience of the population in the past to advance health and clinical decisions for those to follow. I am looking forward to more work that will bring the two fields closer to continuously generate insights about human health.” Wu said. “I’m in a sweet spot.”
Wu joined U-M in Fall 2016, after earning a PhD in Biostatistics from Johns Hopkins University, and a bachelor’s in Mathematics from Fudan University. He said the multitude of large-scale studies going on at U-M and access to EHR databases were factors in his coming to Michigan.
“The University of Michigan is an exciting place that has a diversity of large-scale databases and supportive research groups in the fields I’m interested in,” he said.
Wu is collaborating with the Michigan Genomics Initiative, which is a biorepository effort at Michigan Medicine to integrate genome-wide information with EHR from approximately 40,000 patients undergoing anesthesia prior to surgery or diagnostic procedures. He’s also collaborating with Dr. Srijan Sen, Associate Professor, Department of Psychiatry and Molecular and Behavioral Neuroscience Institute, on the MIDAS-supported project “Identifying Real-Time Data Predictors of Stress and Depression Using Mobile Technology,” the preliminary results of which recently matured into an NIH-funded R01 project “Mobile Technology to Identify Mechanisms Linking Genetic Variation and Depression” that will draw broad expertise from a multi-disciplinary team of medical and data science researchers.
“One of my goals is to use an integrated and rigorous approach to predict how a person’s health status will be in the near future,” Wu said.
Wu applies hierarchical Bayesian models to these problems, which he hopes will shed light on phenomena he describes as latent constructs that are “well-known, but less quantitatively understood, e.g., intelligence quotient (IQ) in psychology.”
As another example, he cites the current challenge in active surveillance of prostate cancer patients for aggressive tumors requiring removal and/or radiation, or indolent tumors permitting continued surveillance.
“The underlying status of aggressive versus indolent cancer is not observed, which needs to be learned from the results of biopsy and other clinical measurements,” he said. “The decisions and experience of urologists and their patients will greatly benefit from more accurate understanding of the tumor status… There are lots of scientific problems in clinical, biomedical, behavioral and social sciences where you have well-known but less quantitatively understood latent constructs. These are problems that Bayesian latent variable methods can formulate and address.”
Just as Wu has a hand in two hot-button big data areas, he also sees himself as straddling the line between application and methodology.
He says the large number of data sources — sensors, mobile apps, test results, and questionnaires, to name just a few — results in richness as well as some “messiness” that needs new methodologies to adjust, integrate and translate to new scientific insights. At the same time, a valid new methodology for dealing with, for example, electronic health data, will likely find numerous different applications.
Wu says his approach was heavily influenced by his work in the Pneumonia Etiology Research for Child Health (PERCH) funded by the Gates Foundation while he was at Johns Hopkins. Pneumonia is a clinical syndrome due to lung infection that can be caused by more than 30 different species of pathogens, including bacteria, viruses and fungi. The goal of the seven-country study that enrolled more than 5,000 cases and 5,000 controls from Africa and Southeast Asia is to estimate the frequency with which each pathogen caused pneumonia in the population and the probability of each individual being infected by the list of pathogens in the lung.
“In most settings, it is extremely difficult to identify the pathogen by directly sampling from the site of infection – the child’s lung. PERCH therefore looked for other sources of evidence by standardizing and comprehensively testing biofluids collected from sites peripheral to the lung. Using hierarchical Bayesian models to infer disease etiology by integrating such a large trove of data was extremely fun and exciting”, he said.
Wu’s initial interest in math, leading to biostatistics and now data science, stems from what he called a “greedy” desire to learn the guiding principles of how the world works by rigorous data science.
“If you have new problems, you can wait for other people to ask a clean math question, or you can go work with these messy problems and figure out interesting questions and their answers,” he said.
For more on Dr. Wu, see his profile on Michigan Experts.
Nested partially latent class models for dependent binary data; Estimating disease etiology
on April 1, 2017 at 12:00 am
Nested partially latent class models for dependent binary data; Estimating disease etiologyWu, Z., Deloria-Knoll, M. & Zeger, S. L. Apr 1 2017 In : Biostatistics. 18, 2, p. 200-213 14 p.Research output: Contribution to journal › Artic […]
Bayesian estimation of pneumonia etiology: Epidemiologic considerations and applications to the pneumonia etiology research for child health study
on January 1, 2017 at 12:00 am
Bayesian estimation of pneumonia etiology: Epidemiologic considerations and applications to the pneumonia etiology research for child health studyKnoll, M. D. , Fu, W. , Shi, Q. , Prosperi, C. , Wu, Z. , Hammitt, L. L. , Feikin, D. R. , Baggett, H. C. , Howie, S. R. C. , Scott, J. A. G. , Murdoch, D. R. , Madhi, S. A. , Thea, D. M. , Brooks, W. A. , Kotloff, K. L. , Li, M. , Park, D. E. , Lin, W. , Levine, O. S. , O'Brien, K. L. & 1 others Zeger, S. L. Jan 1 2017 In : Clinical Infectious Diseases. 64, p. S213-S227Research output: Contribution to journal › Artic […]
Partially latent class models for case-control studies of childhood pneumonia aetiology
on January 1, 2016 at 12:00 am
Partially latent class models for case-control studies of childhood pneumonia aetiologyWu, Z., Deloria-Knoll, M., Hammitt, L. L. & Zeger, S. L. Jan 1 2016 In : Journal of the Royal Statistical Society. Series C: Applied Statistics. 65, 1, p. 97-114 18 p.Research output: Contribution to journal › Artic […]
Marcelline Harris, Ph.D., R.N., is Associate Professor of Systems, Populations and Leadership in the School of Nursing at the University of Michigan, Ann Arbor.
Dr. Harris’s research interests focus on what is being labeled the “continuous use” of clinical data (the use of clinical data for one or more purposes), computable knowledge representation strategies, and the use of electronic clinical data for practice and research. Her research has been funded by NIH, AHRQ, RWJF, and PCORI. Harris also has extensive enterprise level experience, having served in both scientific and operational positions that address the development and governance of systems that support the capture, storage, indexing, and retrieval of clinical data. At Michigan, she retains this translational perspective, emphasizing clinical data for patient-centered research, clinical surveillance and predictive analytics.
V.G.Vinod Vydiswaran, PhD, is Assistant Professor in the Department of Learning Health Sciences with a secondary appointment in the School of Information at the University of Michigan, Ann Arbor.
Dr. Vydiswaran’s research focuses on developing and applying text mining, natural language processing, and machine learning methodologies for extracting relevant information from health-related text corpora. This includes medically relevant information from clinical notes and biomedical literature, and studying the information quality and credibility of online health communication (via health forums and tweets). His previous work includes developing novel information retrieval models to assist clinical decision making, modeling information trustworthiness, and addressing the vocabulary gap between health professionals and laypersons.
Dr. Liu has a broad research interest in the development of statistical models and techniques to address critical issues in health and nursing sciences, computational processing of Big Data in clinical Informatics and Genomics, statistical modeling and assessment of risk factors (e.g. hypertension, diabetes, central obesity, smoking) for adverse cardiovascular and renal outcomes and maternal and child health. His expertise in statistics includes, but is not limited to, repeated measures models with missing data, multilevel models, latent variable models, and Bayesian and computational statistics. Dr. Liu has led and co-led several NIH-funded projects on the quality of care for hypertensive patients.
Kerby Shedden has broad interests involving applied statistics, data science and computing with data. Through his work directing the data science consulting service he has worked in a wide variety of application domains including numerous areas within health science, social science, and transportation research. A current major focus is development of software tools that exploit high performance computing infrastructure for statistical analysis of health records, and sensor data from vehicles and road networks.