jwitte ‘at’ ucsf.edu, 415-502-6882
John is Professor of Epidemiology and Biostatistics, and Urology, Head of the Division of Genetic and Cancer Epidemiology, Associate Director of the Institute for Human Genetics, and co-Leader of the Cancer Genetics Program at UCSF. He obtained a BS in Mathematical Sciences, a MS in Industrial Engineering and Operations Research, and a PhD in Epidemiology (with Sander Greenland at UCLA). Before joining the faculty at UCSF in 2003, he did a post-doc in Biostatistics and spent eight years on the faculty at Case Western Reserve University. In addition to work, he enjoys spending time with his family and friends, outdoors, and in the swimming pool!
majumdar.arunabha ‘at’ gmail.com
Arunabha recently completed his PhD in Statistical Genetics at the Indian Statistical Institute where he studied with Saurabh Ghosh and Partha Majumder. He previously received BS and MS degrees in Statistics. He has developed a nonparametric Bayesian method to infer population structure that improves over existing methods by treating the number of subpopulations as a random variable. Arunabha is continuing to develop novel Bayesian approaches for use with high-dimensional genetic data. He enjoys sports, and his favorite atheletes are S. Nehwal (Badmiton) and V. Anand (Chess!).
caroline.tai ‘at’ ucsf.edu
Caroline is a doctoral student in the Epidemiology and Translational Science program at UCSF. She has a BS in Microbiology from UC San Diego, an MPH in Epidemiology from Emory, and has previously worked in the pharmaceutical industry. Caroline joined John's group in August 2014 is interested in developing risk prediction tools for cancer-related outcomes using genomic data. She enjoys hiking, yoga, and partaking in the Bay Area's many culinary adventures.
chenan.zhang ‘at’ ucsf.edu
Chenan Zhang completed her Ph.D. in Epidemiology at the University of Chicago’s Department of Public Health Sciences in 2016. She has a BS in Biochemistry and Zoology from the University of Florida and an MS in Marine Science from the University of Texas at Austin. Her doctoral research focused on the role of telomere length as a prospective biomarker of cancer risk. As a postdoc in the Witte Lab, her research will involve investigating genetic variants associated with active surveillance failure for prostate cancer. She will also work with Kyle Walsh in the Division of Neuroepidemiology on genetic susceptibility to pediatric glioma. In her free time, Chenan enjoys tending to her heirloom tomato plants, mushroom hunting, and working out at the gym.
clint.cario ‘at’ ucsf.edu
Clint is a PhD student in the BMI program at UCSF. He received bachelor’s degrees in Computer Science and Biochemistry Molecular Biology in 2006 from Penn State, and a Masters in 2010 from Johns Hopkins in Bioinformatics. His current research interests are in tumor heterogeneity and evolution, and using cfDNA (i.e. 'liquid biopsy') to understand tumor genetics. For fun, he likes to hike, play squash, try different ramen restaurants, and cajole people into joining his band.
Emmalyn.Chen ‘at’ ucsf.edu
Emmalyn is a PhD student in the Pharmaceutical Sciences and Pharmacogenomics (PSPG) program at UCSF. In 2014, she obtained a BS in Bioengineering from UC Berkeley. She is generally interested in using genomic data to better understand disease risk and progression. Specifically, she wants to investigate genetic variants that are driving a multiple cancer phenotype. Outside of the office, you will find her watching nature documentaries, top-rope/bouldering, eating seafood, and hanging out with her cats.
meffordj ‘at’ humgen.ucsf.edu
Joel is a PhD student in the PSPG program at UCSF. Before coming to UCSF, Joel worked in biotech and participated in microbial ecology and metagenomics research at the University of Southern California and Stanford. His current work with John and other collaborators at UCSF on development and application of statistical tools for genetic epidemiology draws on his training, which includes an MS in statistics from UC Santa Cruz and an MPH from UC Berkeley. He is particularly interested in novel methods for survival and longitudinal analyses in pharmacogenetic studies. Outside of the office, you can find Joel riding his bicycles.
joshua.hoffman ‘at’ ucsf.edu
Josh completed his Ph.D. in Human Genetics at Vanderbilt University School of Medicine under the mentorship of Dr. Jonathan Haines. His major graduate research focus was in understanding the role that common genetic risk factors play in the progression of age-related macular degeneration (AMD) during the intermediate stages of the disease. Another major avenue of his research was in understanding how genetic risk of AMD identified in the general European American population contributes to risk in the Amish of Ohio and Indiana, through the application of both family based and rare variant analyses. As a postdoctoral fellow in John’s lab, his research involves examining the genetic contribution to allergy risk, and genetic mapping of prostate cancer in underrepresented populations.
Staff Research Associate
lancelote.leong ‘at’ ucsf.edu
Lance has provided post-award grant support to John’s lab since 2011. He joined full-time in 2015 to participate more in its research and the training of its scholars as well as help manage its many projects. He has an AB in History from the University of Chicago, studied French at its Center in Paris, and is currently receiving the greatest education yet learning from the remarkable members of the Witte Lab. He also enjoys drawing, swimming, and spicy food when he can.
nima.emami ‘at’ ucsf.edu
Nima is a doctoral student in Biological and Medical Informatics (BMI) at UCSF. In 2013 he received his BS from UC Berkeley, where he studied Bioengineering, Electrical Engineering and Computer Science (EECS). Nima is currently researching the impact of rare genetic variants on prostate cancer risk and progression, and is generally interested in genomics and health. In his free time he enjoys exploring the city, playing tennis and golf, and following Bay Area sports. In fact, some have referred to him as 'Mr. Bay Area' .
rebecca.graff ‘at’ ucsf.edu
Rebecca joined John's lab as postdoctoral scholar in July 2014. She received her BA in Statistics from the University of California, Berkeley in 2006 and completed her ScD in Epidemiology at the Harvard School of Public Health in May 2014. Her doctoral research focused on the TMPRSS2:ERG fusion in prostate cancer, but she has been involved with epidemiological research across several cancer sites. Moving forward, she will focus on genome-wide association studies and genetic risk scores for disease progression. Outside of work, Rebecca plays soccer several times per week, swims, reads, and catches plenty of A's games.
sara.rashkin ‘at’ ucsf.edu
Sara completed her PhD in Biostatistics at the University of Michigan in December 2015 and joined the lab in January 2016. She received her BA in Statistics from Northwestern University in 2009. Under the mentorship of Dr. Gonçalo Abecasis, her graduate research focused on methods for sequence based studies of complex traits. She worked to determine optimal sequencing strategies for studying very rare variants. She also developed a method for determining copy number variation in a region for a sample of individuals using sequence data. Outside of work, Sara enjoys reading and cooking.
yi-hsuan.wu ‘at’ ucsf.edu
Yi-Hsuan is a masters student in the Clinical Research program at UCSF. She received her BS in Life Science and MS in Molecular and Cellular Biology from National Taiwan University, where she worked on quantitative proteomics of lung cancer. She joined John's research team in July 2015. With her interest in cancer epidemiology, she likes to explore the application of genetic analysis methodologies to determine and prevent cancer. In her free time she enjoys gardening, hiking, spending time with family and a nice cup of tea!
Former Lab Members (& Current Employer)
- Adam Reese, Johns Hopkins
- Bonnie Fijal, Roche Molecular Systems
- Cheryl Thompson, Case Western Reserve University
- David Conti, University of Southern California
- Fred Schumacher, University of Southern California
- Gary Chen, University of Southern California
- Inga Hallgrimsdottir, UC Berkeley
- Jill Hardin, AMGEN
- Jinghua Liu, Philips Healthcare
- Karla Lindquist, UCSF
- Li-Lian Kim, Merck
- Longyang Wu, Affymetrix Inc.
- Michael Passarelli, Dartmouth College
- Niall Cardin, Google Analytics
- Nora Nock, Case Western Reserve University
- Phil Ross, Private Practice
- Remi Kazma, Centre National de Génotypage, France
- Sanoj Punnen, UCSF
- Tobias Nordström, Karolinska Institutet
- Victor Virlogeux, Ecole Normale Supérieure de Lyon
- Xin Liu, Northwestern University
- Yu Chuan Tai, Roche
- Audrey Schnell, Consultant
- Vincent Fradet, Laval University