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Program Schedule

Wednesday, April 7th
9:00–9:15AM	Sudhir Kumar Welcome!
9:15–9:45AM	Charles L Brooks III (U Michigan) Latent Space Models for Protein Fitness and Stability
9:45–10:15AM	Alessandro Laio (Intl. Sch. Advanced Studies) Automatic Topography of Multidimensional Probability Densities
10:15–10:30AM	Bio Break (15 minutes)
10:30–11:30AM	GCR Program Talks (Chair: Ron Levy) 10:30: Topological Aspects of Protein Sequence Space (Vincenzo Carnevale) 10:45: Sequence-covariation Models of Protein Fitness and Evolution (Allan Haldane) 11:00: Deep Learning Approaches for the Study of Epistasis (Slobodan Vucetic) 11:15: Epistasis in the Somatic Evolution of Prostate Cancer (Jeffrey Townsend) GCR Program Talks Q&A
	GCR Lightning Talks (Chair: Allan Haldane)
11:30–12:15PM	11:30: Generative Protein Sequence Models and Metrics (Francisco McGee) 11:35: Sequence Generation from Masked Prediction Models (Sandro Hauri) 11:40: Emergence of Invariant Sites in Molecular Evolution by Epistasis (Ravi Patel) 11:45: What is the Origin of HIV Drug-Resistant Viral Strains? (Avik Biswas) 11:50: Hamiltonian Landscape of Kinetic Routes to Drug Resistance (Indrani Choudhuri) 11:55: Epistasis Among Somatic Cancer Mutations (Jorge Alfaro-Murillo) 12:00: Using Sequence Dimensionality Reduction to Investigate Epistasis (Christine Neville) 12:05: Inherent Properties of Anisotropic Networks (Banu Ozkan) 12:10: Teaching Epistasis through Storyboarding (Caryn S. Babaian) GCR Lightning Talks Q&A
12:15–12:30PM	Ron Levy (Summary) Biophysical Models of Epistasis
12:30–1:00PM	Lunch
1:00–2:00PM	Roundtable with Advisors (NSF-GCR senior members and advisors only)
2:00–2:30PM	Greg Gibson (Georgia Tech) Canalization in Health and Disease
2:30–3:00PM	Predrag Radivojac (Northeastern U) Machine Learning for Coding Variant Effects
	Greg Gibson + Predrag Radivojac Q&A
3:00–3:15PM	Bio Break (15 minutes)
	Contributed Lightning Talks (Chair: Vincenzo Carnevale)
3:15–4:10PM	3:15: Effects of Epistasis on Sugar Utilization Kinetics in Yeast (Anjali Mahilkar) 3:20: Evolutionary Adaptation to Thermosensation via epistasis (Lucia Coronel) 3:25: Sequence and Structural Analysis of GPCRs (Hung Nguyen Do) 3:30: Epistasis from a Machine Learning Perspective (Mindy Shi) 3:35: Residue-Residue Contact Prediction in Disordered Regions (Piyush Borole) 3:40: Modeling the Evolution of Metabolic Pathways (Avery Selberg) 3:45: Modeling Probabilities of Retention of Duplicated Genes (Amanda Wilson) 3:50: Is the Relationship of Individual and Epistatic Mutational Effects Predictable? (Ian Dworkin) 3:55: Evolutionary Consequences of Epistasis on RNA Fitness Landscapes (Eric Hayden) 4:00: Building the Mutational History of SARS-CoV-2 (Sayaka Miura) 4:05: Massive Spatiotemporal Tracking of SARS-CoV-2 Genetic Trends (Steven Weaver)
4:10PM	Ron Levy (Closing Remarks)