Fall 2024 Center for Computational Biology Retreat Schedule
Friday Evening, October 25
| Time | Event |
| 4:00 – 6:00 PM | Check-in – Welcoming Center |
| 6:00 - 6:30 PM | Poster set up -Performance Hall |
| 6:00 - 7:15 PM | Dinner - Dining Hall |
| 7:20- 7:30 PM | Welcome & Opening Remarks, Nilah Ioannidis - Performance Hall |
|
7:30 - 8:00 PM: |
Poster Pitch Session - Performance Hall |
|
7:30-7:35 PM |
Oberon Dixon-Luinenburg (Ioannidis and Streets Labs) Learning the |
|
7:35-7:40 PM |
Kailey Ferger (Tsutsui Lab) Social organization shapes the evolution of the worker caste across Formicidae |
|
7:40-7:45 PM |
Sergio Mares (Ioannidis and Costello Labs) Fine-tuning Protein Language |
|
7:45-7:50 PM |
Anna Dmitrieva (Williams Lab) DNA demethylation stabilizes epigenetic inheritance by preventing spontaneous epiallele formation |
|
7:50-7:55 PM |
Carlos Albors (Song Lab) Pretraining Models on Whole |
|
7:55-8:00 PM |
Michal Rozenwald (Streets and Urnov) Epigenome Editing meets Machine Learning to analyze DNA-Methylation-Based Human Gene Control at a single-molecule resolution |
|
8:00 - 9:00 PM |
Poster Session I - Performance Hall |
|
9:00 - 10:30 PM |
Social activities - Performance Hall |
Saturday, Oct 26th
| Time | Event |
| 7:30 – 9:00 AM | Breakfast – Dining Hall |
| 9:05 – 9:15 AM | Opening Remarks, Elizabeth Purdom – Performance Hall |
|
Session 1: 9:15 – 9:30 AM |
Carmelle Catamura (Lareau Lab)Designing de novo splicing using deep learning for allele-specific silencing of disease genes |
| 9:30 – 9:45 AM |
Meaghan Marohn (Moorjani Lab) Revisiting the evolution of lactase persistence: insights from South Asian genomes |
| 9:45 – 10:00 AM |
Seraphina Shi (Huang Lab) co-presesnting with Aidan McLoughlin Integrative Deep Multi-Learning for Predicting and Biclustering Cancer Drug Responses (impaCluster): Leveraging Cancer Omics and Drug Molecular Data |
| 10:00 – 10:15 AM |
Fiona Callahan (Nielsen Lab) Challenges in detecting ecological interactions using sedimentary ancient DNA data |
| 10:15 - 10:45 AM | Coffee Break - Performance Hall |
|
Session 2: 10:45 - 11:00 AM |
Florica Constantine (Dudoit Lab)Poisson Spatial Models for Multi-Sample Spatial Transcriptomics Data |
| 11:00 – 11:15 AM |
Hanlun Jiang (Listgarten Lab) Statistical machine learning for understanding protein-protein interactions from synthetic coevolution |
| 11:15 – 11:30 AM | Antoine Koehl (Song Lab) Deep Models of Protein Evolution in Time |
|
11:30 – 12:30 PM |
Keynote Speaker - Dr. Anshul Kundaje, Associate Professor, Genetics and Computer Science, Stanford University - Performance Hall Deciphering regulatory syntax and genetic variation with deep learning models |
|
12:30 – 1:30 PM |
Lunch - Dining Hall |
|
1:30 - 3:45 PM |
Free time - See link for organized social activities |
|
Session 2 continued: 4:00 – 4:15 PM |
Hunter Nisonoff (Listgarten Lab)Unlocking Guidance for Discrete State-Space Diffusion and Flow Models |
| 4:15 – 4:30 PM |
Helen Sakharova (Lareau Lab)Identifying codon constraints in yeast by combining large unsupervised learning models and genome-wide screens |
| 4:30 – 4:45 PM |
Danielle Stevens (Krasileva Lab)Using the past to predict the future: how receptor-epitope variation can inform plant pathogen outcomes |
| 4:45 - 5:00 PM |
Yulin Zhang (Moorjani Lab) Reconstructing Mutation Patterns over the course of Human Evolution |
| 5:00 – 5:15 PM |
Andrew Vaughn (Nielsen Lab) Ancient selective pressures on metabolic traits contribute to obesity and weight-related diseases in modern populations |
| 5:15 – 5:30 PM |
Stacy Li (Sudmant) Characterization of de novo retrotransposition events in the aging germline |
| 5:30 – 6:15 PM |
CompBio Student Meeting - Nagle Room Faculty Happy Hour - TBD |
| 6:30 – 8:00 PM | Dinner - Dining Hall |
| 8:00 - 9:00 PM | Poster Session and Reception - Performance Hall |
| 9:00 - 10:30 PM | Social activities - Performance Hall |
Sunday, Oct 27th
| Time | Event |
| 7:30 – 9:00 AM | Breakfast – Dining Hall |
| 9:05 – 9:15 AM | Opening Remarks, Elizabeth Purdom – Performance Hall |
| 9:15 – 10:45 AM | DEI session - Tracy Pascua Dea, Academic Climate Program Director, Office of Faculty Equity and Welfare, Creating an Inclusive Lab Environment - Performance Hall |
| 10:45 – 11:00 AM | Coffee Break - Performance Hall |
| 11:00 – 12:00 PM |
Keynote Speaker - Dr. Allon Wagner, Assistant Professor, Center for Computational Biology, EECS & Molecular and Cell Biology, UC Berkeley: Computational inference of metabolic tissue zonation and metabolic crosstalk in inflammatory disease |
| 12:00 - 12:15 PM |
Awards and Closing Remarks, Elizabeth Purdom - Dining Hall |
| 12:15 - 1:15 PM |
Lunch - Dining Hall |
| 1:30 PM |
Charter Bus Departure - Entry Court (bus leaves promptly at 2pm!) |