Alumni

Biomathematics Ph.D. Program

Directory

List

Alexander V. Alekseyenko
Advisor:
Suchard, M. and Lee, C.
Dissertation:
Computational, comparative and stochastic modeling approaches to evolution of alternatively spliced exons
Grad Year:
2008
Post Grad Plans:
Associate Professor of Biomedical Informatics; Founding Director, Program for Human Microbiome Research; Graduate Program Director, Joint Clemson-MUSC PhD training program in Biomedical Data Science and Informatics; Medical University of South Carolina
David Alexander
Advisor:
Lange, K.
Dissertation:
Statistical and computational methods for ancestry estimation and variable selection in genome-scale datasets
Grad Year:
2011
Post Grad Plans:
Software engineer at Google X since 2017 (formerly at Pacific Biosciences)
Jason E. Aten
Advisor:
Lange, K. and Horvath, S.
Dissertation:
Causal not confounded gene networks: inferring acyclic and non-acyclic gene bayesian networks in mrna expression studies using recursive v-structures, genetic variation, and orthogonal causal anchor structural equation models
Grad Year:
2008
Post Grad Plans:
Quantitative Developer, Consultant
Alireza Atri
Advisor:
Sneyd, J.
Dissertation:
Mathematical modeling and analysis of intracellular calcium dynamics: oscillations and wave propagation
Grad Year:
1996
Post Grad Plans:
Medical Director, Banner Sun Health Research Institute (BSHRI), 2018-present (formerly California Pacific Medical Center)
Kristin Lynn Ayers
Advisor:
Lange, K.
Dissertation:
Methods for haplotype construction and their applications
Grad Year:
2008
Post Grad Plans:
Research Scientist, Sema4 Genomics, 2017-present (formerly Icahn Institute for Genomics and Multiscale Biology)
Mark M. Bahn
Advisor:
Huang, S.
Dissertation:
Studies of ligand-neuroreceptor binding with dynamic in vivo human and primate position emission tomography data: model definition, validation, and parameta estimation
Grad Year:
1988
Post Grad Plans:
Associate Professor of Radiology and Consultant in the Department of Radiology, Mayo Clinic
Lara E. Bauman
Advisor:
Lange, K.
Dissertation:
Qtl variance component models
Grad Year:
2007
Post Grad Plans:
Technical Staff Member, Sandia National Laboratory, 2010-present and Math professor, Chabot College, 2019-present
Michael Lee Boehnke
Advisor:
Lange, K. and Spence, M.
Dissertation:
Advances in pedigree analysis: ascertainment, goodness of fit, and optimization
Grad Year:
1983
Post Grad Plans:
Richard G. Cornell Distinguished University Professor of Biostatistics; Director, Center for Statistical Genetics; Director, Genome Science Training Program, University of Michigan
Richard Ellis Carson
Advisor:
Huang, S.
Dissertation:
Two parameter estimation methods for positron emission tomography: theory and application to the measurement of local cerebral blood flow in humans
Grad Year:
1983
Post Grad Plans:
Professor of Radiology and Biomedical Imaging and of Biomedical Engineering; Director, Yale PET Research Center; Director of Graduate Studies, Biomedical Engineering, 2005-present
Joshua Chang
Advisor:
Chou, T.
Dissertation:
Cortical spreading depression: a mathematical model and associated inverse problems
Grad Year:
2012
Post Grad Plans:
NSF Postdoc Fellow at Mathematical Biosciences Institute, 2012-2015; NIH contractor, 2019-present; co-founder of Mederrata
Kewei Chen
Advisor:
Huang, H.
Dissertation:
Estimation methods that account for measurement characteristics and statistical noise of input function in quantitative dynamic pet studies
Grad Year:
1993
Post Grad Plans:
Director of the Computational Image Analysis Program, Banner PET Center; Adjunct Professor in the Department of Mathematics and Statistics, Arizona State University
Eugene Chudin
Advisor:
Landaw, E. and Kogan, B.
Dissertation:
Instability of cardiac excitation wave propagation and intracelluar calcium dynamics (computer simulation study)
Grad Year:
1999
Post Grad Plans:
Staff Data Scientist, Google, 2019 - present (formerly Microsoft)
Forrest Wrenn Crawford
Advisor:
Suchard, M. and Lee, C.
Dissertation:
General birth-death processes: probabilities, inference, and applications
Grad Year:
2012
Post Grad Plans:
Associate Professor of Biostatistics, Evolutionary Biology, and Statistics, Yale School of Public Health
Gabriela Cybis
Advisor:
Suchard, M.
Dissertation:
Phenotypic Bayesian phylodynamics: hierarchical graph models, antigenic clustering and latent liabilities
Grad Year:
2014
Post Grad Plans:
Assistant Professor, Department of Statistics, Federal University of Rio Grande do Sul, Brazil
Karin Saskia Dorman
Advisor:
Sinsheimer, J.
Dissertation:
Human immunodeficiency virus type 1 genome variability- recombination and emergence of resistance
Grad Year:
2001
Post Grad Plans:
Associate Professor, Bioinformatics & Computational Biology Graduate Program, 2001-present
Sanjiv Gambhir
Advisor:
Huang, S.
Dissertation:
Quantitation of the physical factors affecting the tracer kinetic modeling of cardiac positron emission tomography data
Grad Year:
1990
Post Grad Plans:
Professor of Radiology and Division Chief, Molecular Imaging Program at Stanford (MIPS), Stanford University
Leeta Alison Green
Advisor:
Gambhir, S.
Dissertation:
Quantitating herpes symplex virus type 1 thymidine kinase reporter gene expression in living animals using positron emission tomography and a tracer kinetic model for radiolabeled acrylic guanosine analogues
Grad Year:
2003
Post Grad Plans:
Unknown
William Robert Holmes
Advisor:
Newton, C. and Woody, C.
Dissertation:
Cable theory modeling of the effectiveness of synaptic inputs in cortical pyramidal cells
Grad Year:
1986
Post Grad Plans:
Professor Emeritus, Biological Sciences, Ohio University
Wesley Kerr
Advisor:
Cohen, M.
Dissertation:
Developing and Integrating Computer-Aided Diagnostic Tools into Clinical Medicine
Grad Year:
2015
Post Grad Plans:
Finished M.D. in 2017; Neurology Resident at UCLA
Kevin Keys
Advisor:
Lange, K.
Dissertation:
Projection algorithms for large scale optimization and genomic data analysis
Grad Year:
2016
Post Grad Plans:
Postdoctoral Scholar, Department of Medicine and BIDS Data Science Fellow, UCSF
Lae Un Kim
Advisor:
Chou, T.
Dissertation:
Mathematical models of stress disorders: Neuroendocrine dynamics and response
Grad Year:
2017
Post Grad Plans:
Postdoctoral Fellow in Quantitative Biological Modeling, Northwestern, 2017-present
Kevin Daniel Klapstein
Advisor:
Bruinsma, R. and Chou, T.
Dissertation:
Physical models of the activities of the e. Coli dna strand exchange protein RecA
Grad Year:
2004
Post Grad Plans:
Unknown
Julian Landaw
Advisor:
Qu, Z.
Dissertation:
Cardiac Memory in the Genesis of Arrhythmias
Grad Year:
2019
Post Grad Plans:
Completing MD at UCLA-Caltech Medical Scientist Training Program (MSTP)
Elliot M. Landaw
Advisor:
Newton, C. and Jennrich, R.
Dissertation:
Optimal experimental design for biologic compartmental systems with applications of pharmacokinetics
Grad Year:
1980
Post Grad Plans:
Professor Emeritus, Biomathematics and Bioengineering, UCLA
Wei-Hsun Liao
Advisor:
Huang, H.
Dissertation:
Mathematical techniques in object matching and computational anatomy: a new framework based on the level set method
Grad Year:
2003
Post Grad Plans:
Psychiatrist and Associate Professor in Psychiatry and Bioengineering, University of Illinois
Charles Louy
Advisor:
Peskoff, A.
Dissertation:
Mathematical models of oxygen diffusion in skeletal and cardiac muscle and role of myoglobin, with applications to experiments on oxygen consumption and solubilities in muscle
Grad Year:
1983
Post Grad Plans:
Director, Inpatient Pain Service: Assistant Director, Pain Management Fellowship Program, Cedars-Sinai
Donald Kirkman Mahoney
Advisor:
Huang, S.
Dissertation:
Effects of neuroreceptor clustering on ligand binding kinetics in positron emission tomography
Grad Year:
1990
Post Grad Plans:
Unknown
John Macky Marshall
Advisor:
Chou, T. and Taylor, C.
Dissertation:
The dynamics of transposable elements in genetically modified mosquito vectors
Grad Year:
2007
Post Grad Plans:
Assistant Professor in Residence of Biostatistics and Epidemiology, School of Public Health, UC Berkeley
Michelle McCarthy
Advisor:
Newton, C.
Dissertation:
Neocortical Mechanisms Mediating Electroencelphalographic Oscillations: A Biomathematical Analysis of Anesthesia-Induced Paradoxical Excitation
Grad Year:
2007
Post Grad Plans:
Research Assistant Professor in Mathematical Neuroscience and Dynamical Systems, Boston University
Seth Gary Michelson
Advisor:
Newton, C. and Brown, E.
Dissertation:
Tumor escape phenomena: a stochastic compartment analysis
Grad Year:
1987
Post Grad Plans:
Chief Scientific Officer and Biomathematician at Theranos
Vladimir Minin
Advisor:
Suchard, M.
Dissertation:
Exploring evolutionary heterogeneity with change-point models, gaussian markov random fields, and markov chain induced counting processes
Grad Year:
2007
Post Grad Plans:
Professor of Statistics, UC Irvine, 2017-present (formerly University of Washington)
Bhaven Mistry
Advisor:
Chou, T.
Dissertation:
Stochastic Physics of Biological Assays and Improved Inference
Grad Year:
2019
Post Grad Plans:
Assistant Director of the Quantitative and Computing Lab and Visiting Assistant Professor of Mathematical Sciences at Claremont McKenna College.
William R. Mower
Advisor:
Newton, C.
Dissertation:
Stress distributions in aortic aneurysms: factors affecting risk of rupture
Grad Year:
1998
Post Grad Plans:
Emergency Medicine Physician at Ronald Reagan UCLA Medical Center
Sarah Nowak
Advisor:
Chou, T.
Dissertation:
Membrane Mechanics of Endocytic Processes and Cell Adhesion
Grad Year:
2009
Post Grad Plans:
Assistant Professor in the Larner College of Medicine, Center for Health Services Research, and Department of Pathology and Laboratory Medicine, University of Vermont
John David O' Brien
Advisor:
Suchard, M. and She, Z.
Dissertation:
Robust statistical methods for estimating the distance and the rate of change among molecular sequences sampled from rapidly-evolving organisms
Grad Year:
2008
Post Grad Plans:
Associate Professor of Mathematics, Bowdoin College
Hillary Protas
Advisor:
Huang, H.
Dissertation:
Quantitative PET Image Analysis Using MR Derived Cortical Surface Maps in AD Patients and Control Subjects
Grad Year:
2010
Post Grad Plans:
Researcher, Banner Alzheimer's Institute
John Michael Ordonez Ranola
Advisor:
Lange, K.
Dissertation:
Probability models in networks and landscape genetics
Grad Year:
2013
Post Grad Plans:
Statistical Geneticist Research Scientist, Department of Laboratory Medicine, University of Washington, 2016-present
Benjamin David Redelings
Advisor:
Lange, K.
Dissertation:
Joint bayesian estimation of alignment and phylogeny
Grad Year:
2006
Post Grad Plans:
Research Scientist, Duke University
Neil Jay Risch
Advisor:
Lange, K.
Dissertation:
Theoretical and statistical analysis of chiasma distributions, recombination, and gene mapping
Grad Year:
1979
Post Grad Plans:
Professor, Department of Epidemiology and Biostatistics, and Director, Center for Human Genetics, UCSF
Robert James Rovetti
Advisor:
Chou, T. / Qu, Z.
Dissertation:
Stochastic models of intracellular calcium release and alternans
Grad Year:
2008
Post Grad Plans:
Associate Professor of Mathematics in the Seaver College of Science and Engineering, Loyola Marymount University
Eric E. Schadt
Advisor:
Lange, K.
Dissertation:
Generalized mathematical models for the reconstruction of evolutionary trees
Grad Year:
2002
Post Grad Plans:
Founder and CEO of Sema4, a patient-centered predictive health company
Mary Sehl
Advisor:
Lange, K. and Sinsheimer, J.
Dissertation:
Stochastic dynamics of cancer stem cells
Grad Year:
2009
Post Grad Plans:
Assistant Professor in Division of Hematology-Oncology and Department of Computational Medicine, UCLA
Trevor Shaddox
Advisor:
Suchard, M.
Dissertation:
Learning clinical outcomes from massive observational data
Grad Year:
2016
Post Grad Plans:
Resident at Psychiatry Residency Training Program, UCLA
Bruce Edward Shapiro
Advisor:
Newton, C.
Dissertation:
An electrophysiological model of gap-junction mediated cortical spreading depression including osmotic volume changes
Grad Year:
2000
Post Grad Plans:
Lecturer in Mathematics and Computer Science, California State University, Northridge
Kooresh Shoghi-Jadid
Advisor:
Huang, H. and Barrio, J.
Dissertation:
Imaging alzheimer's disease at pet's resolution: a critical analysis through simulation of beta-amyloid pathology
Grad Year:
2005
Post Grad Plans:
Associate Professor of Radiology, Washington University School of Medicine
Janet Suzanne Sinsheimer
Advisor:
Little, R. and Lake, J.
Dissertation:
Extensions to evolutionary parsimony
Grad Year:
1994
Post Grad Plans:
Professor of Biostatistics, Biomathematics, and Human Genetics, UCLA
Sonya Jacinta Snedecor
Advisor:
Newton, C.
Dissertation:
Mathematical models to evluate the optimal treatment of hiv-1 infection and the response of drug-resistant variants
Grad Year:
2002
Post Grad Plans:
Executive Director of Health Economics, Pharmerit International
Eric Martin Sobel
Advisor:
Lange, K.
Dissertation:
Markov chain monte carlo methods in pedigree analysis: theoretical development and applications to location scores, variance component models, haplotyping, and marker allele sharing statistics
Grad Year:
1996
Post Grad Plans:
Professor-in-Residence of Human Genetics and Biomathematics, UCLA
Marc Suchard
Advisor:
Sinsheimer, J. and Weiss, R.
Dissertation:
Model building and selection in bayesian phylogenetic reconstruction
Grad Year:
2002
Post Grad Plans:
Professor of Biostatistics, Biomathematics, and Human Genetics, UCLA
Elif Tekin
Advisor:
Savage, V.
Dissertation:
Emergent patterns in vascular networks and interaction networks: A network-centric approach for studying complex systems
Grad Year:
2017
Post Grad Plans:
Postdoctoral Researcher at UCLA
Wynn Landis Walker
Advisor:
Landaw, E. and Dickerson, E.
Dissertation:
The computational design of minor groove binding sequence reading molecules and a mathematical analysis of their sequence binding properties
Grad Year:
1997
Post Grad Plans:
Statistical Data Analysis Consultant at NextBio
Daniel Eastman Weeks
Advisor:
Lange, K.
Dissertation:
New mathematical methods for human gene mapping
Grad Year:
1988
Post Grad Plans:
Professor, Human Genetics and Biostatistics, Graduate School of Public Health, University of Pittsburgh
Moses Quinn Wilks
Advisor:
Huang, H.
Dissertation:
Quantitative neurologic and oncologic positron emission tomography: overcoming practical and structural barriers
Grad Year:
2014
Post Grad Plans:
Assistant in Physics, Gordon Center for Medical Imaging, Mass General Hospital; Instructor, Harvard Medical School
Song Xu
Advisor:
Chou, T.
Dissertation:
Mathematical Modeling of Clonal Dynamics in Primate Hematopoiesis
Grad Year:
2018
Post Grad Plans:
Data Scientist at Signifyd Inc.
Jin Zhou
Advisor:
Lange, K. and Sinsheimer, J.
Dissertation:
Advances in pedigree analysis: hardy-weinberg equilibrium, strain imputation, and maternal effects
Grad Year:
2011
Post Grad Plans:
Associate Professor, University of Arizona (formerly research fellow, Harvard School of Public Health)