The Herbert and Florence Irving Institute for Cancer Dynamics hosts a seminar series on the topic of mathematical sciences underpinning cancer research. The monthly seminars take place on the third Thursday of the month, 4:00-5:00 PM EST. The presentations are held via Zoom and are opened to the Columbia community and to researchers outside Columbia University.
On Thursday, January 20th (4:00-5:00 PM, EST), IICD welcomes Alexandre Bouchard-Côté, PhD, Associate Professor of Statistics, Department of Statistics, University of British Columbia.
To attend the seminar, please register here: https://columbiauniversity.zoom.us/meeting/register/tJwrdOmuqTouH9IwvdwRZOiD0-v-u8ycV07N
Title: Inferring fitness of cancer subpopulations from time series --- Bayesian methods for the Wright-Fisher diffusion with selection
Abstract: From timeseries of patient-derived xenograft data, we are interested in inferring fitness parameters for sub-populations of cancer cells measured using single cell sequencing. I will present a statistical model for Bayesian inference of these fitness parameters. The model is based on a stochastic differential equation, the Wright-Fisher diffusion with fitness, the parameters of which are treated as random. We extend advanced MCMC methodologies such as PMCMC to perform Bayesian inference at scale, the posterior distribution being defined over a high-dimensional space and informed by a large dataset. Reference: Clonal fitness inferred from time-series modelling of single-cell cancer genomes. (2021) Nature. Sohrab Salehi, Farhia Kabeer, Nicholas Ceglia, Mirela Andronescu, Marc Williams, Kieran R. Campbell, Tehmina Masud, Beixi Wang, Justina Biele, Jazmine Brimhall, David Gee, Hakwoo Lee, Jerome Ting, Allen W. Zhang, Hoa Tran, Ciara O’Flanagan, Fatemeh Dorri, Nicole Rusk, Teresa Ruiz de Algara, So Ra Lee, Brian Yu Chieh Cheng, Peter Eirew, Takako Kono, Jenifer Pham, Diljot Grewal, Daniel Lai, Richard Moore, Andrew J. Mungall, Marco A. Marra, IMAXT Consortium, Andrew McPherson, Alexandre Bouchard-Côté, Samuel Aparicio, Sohrab P. Shah.
Bio: Alexandre Bouchard is an associate professor of statistics at the University of British Columbia. He received his PhD in computer science from the University of California, Berkeley. His research focuses on computational Bayesian methods and applications in cancer genomics and phylogenetics. https://www.stat.ubc.ca/~bouchard/index.html