2019 Midwest Computational Biology Workshop @ TTIC

8:30-8:55: Continental breakfast at TTIC

8:55-12:15: Metagenomics and Microbiome Session

8:55-9:00: Introductory Remarks, Michael Yu, TTIC

9:00-9:45: Catherine Putonti, Loyola University Chicago. The Urinary Tract Virome and Women’s Health

9:45-10:30: Yuzhen Ye, Indiana University. Computational methods for microbiome-based discovery and application of CRISPR-Cas systems.

10:30-10:45: Snacks and Coffee Break

10:45-11:30: Zhong Wang, Joint Genome Institute. Metagenome Exploration: discover novel microbial species.

11:30-12:15: Fiona Brinkman, Simon Fraser University. The power, the promise - and the pitfalls - of microbiome analyses.

12:15-1:15: Lunch at TTIC

1:15-5:30: Cancer Genomics & Computational Immunology Session

1:15-1:30: Introductory Remarks, Aly A. Khan, University of Chicago

1:30-2:15: Cenk Sahinalp, National Cancer Institute. Tumor evolution modeling through integrative use of bulk and single cell sequencing data

2:15-3:00: Hatice Osmanbeyoglu, University of Pittsburgh. Predictive gene regulatory models for precision medicine

3:00-3:45: Alex Rubinsteyn, Icahn School of Medicine at Mount Sinai. Personalized cancer vaccines

3:45-4:00: Snacks and Coffee Break

4:00-4:45: Kenneth Hoehn, Yale University. Phylogenetic analysis of B cell repertoires

4:45-5:30: Jonathan Carlson, Microsoft Research. The Adaptive-Microsoft Antigen Map Project

5:30-6:15: Reception at TTIC

8:30-8:55: Continental breakfast at TTIC

8:55-12:15: Protein Structure Session

8:55-9:00: Introductory Remarks, Jinbo Xu, TTIC

9:00-9:45: Ivan Anishchenko, University of Washington. Improved protein structure prediction using predicted inter-residue orientations.

9:45-10:30: Michael Feig, Michigan State University. High-Resolution structure refinement via MD Simulations.

10:30-10:45: Snacks and Coffee Break

10:45-11:30: Tristan Bepler, MIT. Learning protein sequence embeddings using information from structure.

11:30-12:15: Alex Rives, New York University. Biological structure and function emerge from scaling unsupervised learning to 250 million protein sequences.

12:15-1:15: Lunch at TTIC

1:15-4:35: Brain Connectomics Session

1:15-1:20: Introductory Remarks, Michael Yu, TTIC

1:20-2:05: Narayanan "Bobby" Kasthuri, University of Chicago, Argonne National Laboratory.

2:05-2:50: Viren Jain, Google. High-throughput synapse-resolution connectomics in fly, bird, and human brains.

2:50-3:05: Snacks and Coffee Break

3:05-3:50: Olaf Sporns, Indiana University. Network models of brain structure and function.

3:50-4:35: Sarah Muldoon, University at Buffalo. Exploring individual differences through personalized brain network models.

4:35-5:20: Reception at TTIC