Mathematics and Statistics of Genomic Epidemiology (Online)
Videos from CMO Workshop
Trevor Bedford, Fred Hutchinson Cancer Research Center
Monday Nov 9, 2020 10:00 - 10:21
Genomic tracking of SARS-CoV-2 evolution and spread
Lindi Wahl, University of Western Ontario
Monday Nov 9, 2020 10:20 - 10:39
How different is the flu you transmit from the flu you received?
Nicholas Croucher, Imperial College London
Monday Nov 9, 2020 10:50 - 11:10
The evolution of multi-strain bacterial populations
Jimmy Liu, BCCDC
Monday Nov 9, 2020 11:10 - 11:30
High-resolution characterization of global Salmonella subpopulations
Aaron King, University of Michigan
Monday Nov 9, 2020 12:30 - 12:50
Phylodynamics and genealogy-valued Markov processes
Liangliang Wang, Simon Fraser University
Monday Nov 9, 2020 12:50 - 13:10
Bayesian inference of parameters in transmission models
Robert Beiko, Dalhousie University
Monday Nov 9, 2020 13:20 - 13:34
Mapping the shared evolutionary trajectories of resistance genes and other (possibly!) bad actors
Jianhong Wu, York University
Monday Nov 9, 2020 13:40 - 14:00
COVID-19: implication of multi-waves
Olivier Gascuel, Centre National de la Recherche Scientifique & Muséum National d'Histoire Naturelle
Tuesday Nov 10, 2020 10:00 - 10:20
Large-scale phylogeography of hCoV-19
Carmen Murall, PHAC
Tuesday Nov 10, 2020 10:20 - 10:40
Genomic epidemiology of SARS-CoV-2 in Quebec
Melodie Monod, Imperial College London
Tuesday Nov 10, 2020 10:50 - 11:10
Estimating the age groups that sustain resurging COVID-19 epidemics in the United States
Maribel Hernandez-Rosales, Center for Research and Advanced Studies
Tuesday Nov 10, 2020 11:10 - 11:31
Insights on the Effects of Contact and Mobility Network Dynamics in the Mexican COVID-19 Epidemics
David Rasmussen, NC State
Tuesday Nov 10, 2020 12:30 - 12:50
Decomposing the sources of SARS-CoV-2 fitness variation using phylodynamics
Katia Koelle, Emory University
Tuesday Nov 10, 2020 12:50 - 13:10
Phylodynamic inference - with and without phylogenies?
Vladimir Minin, University of California - Irvine
Tuesday Nov 10, 2020 13:20 - 13:40
Bayesian modeling and data integration in infectious disease phylodynamics
Art Poon, Western University
Tuesday Nov 10, 2020 13:40 - 14:00
Optimizing the genetic clustering of viruses for public health surveillance
Xavier Didelot, University of Warwick
Wednesday Nov 11, 2020 10:00 - 10:20
Additive uncorrelated relaxed clock models
Mark Achtman, University of Warwick
Wednesday Nov 11, 2020 10:20 - 10:40
Hierarchical population genomic structure of bacterial pathogens in EnteroBase
Oliver Ratmann, Imperial College London
Wednesday Nov 11, 2020 10:50 - 11:10
Estimating population level transmission dynamics from pathogen deep sequence data: a case study around HIV hotspots in sub Saharan-Africa
Alexandre Bouchard-Côté, UBC
Wednesday Nov 11, 2020 11:10 - 11:30
Distribution continuum methods for phylogenetic inference
John Lees, EMBL-EBI
Wednesday Nov 11, 2020 12:30 - 12:52
Hardware-accelerated genome sketching enables real-time genomic epidemiology of pathogens
Pierre Mahé, bioMérieux
Wednesday Nov 11, 2020 12:50 - 13:10
Improving the interpretability of k-mer-based signatures for antibiotic resistance prediction
Zamin Iqbal, EBI/Sanger Institute
Wednesday Nov 11, 2020 13:20 - 13:40
Revealing hidden genetic variation in the bacterial accessory genome
Jingyi Jessica Li, University of California Los Angeles
Wednesday Nov 11, 2020 13:40 - 14:00
mbImpute: an accurate and robust imputation method for microbiome data
Kevin Ma, Harvard University
Thursday Nov 12, 2020 10:00 - 10:20
Increased power from conditional bacterial genome-wide association identifies macrolide resistance mutations in Neisseria gonorrhoeae
Tatum Mortimer, Harvard T.H. Chan School of Public Health
Thursday Nov 12, 2020 10:20 - 10:40
Adaptation to the cervical environment is associated with increased antibiotic susceptibility in Neisseria gonorrhoeae
Santiago Castillo-Ramirez, UNAM
Thursday Nov 12, 2020 10:50 - 11:10
Population genomics of A. baumannii reveals a licentious and highly mobile resistome
Brian Ingalls, University of Waterloo
Thursday Nov 12, 2020 11:10 - 11:30
Synthetic biology approaches to suppression of antibiotic resistance
Irina Ostrovnaya, Memorial Sloan-Kettering Cancer Center
Thursday Nov 12, 2020 12:30 - 12:50
Identifying prognostic pairwise relationships among bacterial species in microbiome studies
Celia Greenwood, Lady Davis Institute for Medical Research
Thursday Nov 12, 2020 12:50 - 13:10
Bayesian community modelling of the microbiome
Leonid Chindelevitch, Imperial College, London
Thursday Nov 12, 2020 13:20 - 13:40
Interpretable machine learning methods for predicting drug resistance
Edward Feil, University of Bath
Thursday Nov 12, 2020 13:40 - 14:00
The adaptation and transmission of Klebsiella species and strains in human, animal and environmental settings
Paul Gordon, University of Calgary
Friday Nov 13, 2020 10:00 - 10:05
Considerations for estimating Rt in Alberta, Canada
Marco Hamins-Puertolas, NCSU
Friday Nov 13, 2020 10:05 - 10:10
Inference of Multiscale Selection using a Continuous Type Birth Death Model
Lenora Kepler, NCSU
Friday Nov 13, 2020 10:10 - 10:15
Using phylodynamics and decision trees to estimate the effects of mutation on viral fitness
Adrian Cazares, EMBL-EBI & Sanger Institute
Friday Nov 13, 2020 10:15 - 10:20
Combining sequencing technologies and data mining to study (mega)plasmid families
Alpha Forna, SFU
Friday Nov 13, 2020 10:20 - 10:25
Case fatality imputation using machine learning
Dongyuang Song, UCLA
Friday Nov 13, 2020 10:25 - 10:30
PseudotimeDE: inference of differential gene expression along cell pseudotime with well-calibrated p-values from single-cell RNA sequencing data
Miles Xi, UCLA
Friday Nov 13, 2020 10:30 - 10:35
Benchmarking computational doublet-detection methods for single-cell RNA sequencing data
Daniel Anderson, Imperial
Friday Nov 13, 2020 10:35 - 10:40
In-browser genome sketching for secure real-time genomic epidemiology
Morteza Mahmoudisaber, U Montreal
Friday Nov 13, 2020 10:40 - 10:45
Do machine learning predictors of microbial phenotype from genotype identify causal variants?
Samuel Horsfield, Imperial College London
Friday Nov 13, 2020 10:45 - 10:50
ggCaller: a gene caller for bacterial pangenome graphs
Maryam Hayati, Simon Fraser University
Friday Nov 13, 2020 10:50 - 10:55
Deep clustering of bacterial tree images
Xueting Qiu, Harvard School of Public Health
Friday Nov 13, 2020 10:55 - 11:00
Persistence and Evolution of SARS-CoV-2 in an Immunocompromised Host
