For each talk: 20-minute presentation followed by a 5-minute Q&A.
Suggested poster size: 30" × 40".
8:00-8:45 Registration, Coffee, and Light Breakfast
8:45-9:00 Opening Remarks
9:00-10:15 Session: Machine Learning in Genomics I (Chairs: Sara Mostafavi and Sriram Sankararaman)
- 9:00 AM — Sriram Sankararaman, "GPC: An expressive, tractable, and privacy-preserving deep generative model for genetic variation data"
- 9:25 AM — Matteo Fumagalli, "Generative models for clinical and population genetic data"
- 9:50 AM — Jan Engelmann, "Scalable and robust mapping of eQTL interactions reveals immune cell contexts of regulatory variant activity"
10:45-12:00 Session: Machine Learning in Genomics II
- 10:45 AM — Sara Mostafavi, "Scaling Sequence-to-Function Models for Regulatory Variant Interpretation"
- 11:10 AM — Kuan-Hao Chao, "Predicting dynamic expression patterns in budding yeast with a fungal DNA language model"
- 11:35 AM — Chengzhong Ye, "Predicting functional constraints with phylogeny-informed genomic language models"
1:00-2:00 GHIST Workshop (Optional) — Location: LKS 125
2:00-4:00 Poster Session I — Location: LKS Atrium (ground & first floor)
8:00-9:00 Coffee and Light Breakfast
9:00-10:15 Session: Quantitative Genetics and Association Mapping I (Chairs: Sasha Gusev and Sohini Ramachandran)
- 9:00 AM — Sohini Ramachandran, "It's All Relative: Turning Biobank 'Nuisance' Kinship into New Genetic Insights"
- 9:25 AM — Lin Poyraz, "Leveraging relatedness in genomic datasets to study variation in germline mutation rates"
- 9:50 AM — Roshni Patel, "The ubiquity of evolutionary theory: phylogenetic approaches to genetic confounding in epidemiology and psychology"
10:45-12:00 Session: Quantitative Genetics and Association Mapping II
- 10:45 AM — Sasha Gusev, "Learning context specific disease mechanisms from single cell data"
- 11:10 AM — Scott Sauers, "Calibration of polygenic scores across ancestries"
- 11:35 AM — Max Dudek, "A meta-analysis of chromatin accessibility QTLs explains differences in QTL-GWAS colocalization"
1:30-2:30 Keynote I (Jonathan Pritchard), "From genes to programs to traits: Building causal models for human genetics with GWAS and perturb-seq"
3:00-4:15 Session: Systems Biology I (Chairs: Christina Leslie and Heng Li)
- 3:00 PM — Christina Leslie, "Learning multiomic cell dynamics with neural ODEs"
- 3:25 PM — Nicholas Ingolia, "Interpretable systems biology models from genetic interaction maps"
- 3:50 PM — Alexis Garretson, "Bayesian approaches for considering cell type composition when assessing the heritability and covariance of aging-related genomic traits"
4:45-6:00 Session: Systems Biology II
- 4:45 PM — Heng Li, "Modeling phylogenetic trees with Stochastic Context-Free Grammar (SCFG)"
- 5:10 PM — Magdalena Russell, "Inferring signatures of time-varying mutational mechanisms during antibody affinity maturation"
- 5:35 PM — Jiawei Xing, "VOUS: Variational Ornstein-Uhlenbeck linking single-cell lineage tracing with stochastic gene expression"
6:00-8:00 Self-organized Dinner
8:00-9:00 Coffee and Light Breakfast
9:00-10:15 Session: Phylogenetics and Evolutionary Dynamics I (Chairs: Erick Matsen and Julia Palacios)
- 9:00 AM — Julia Palacios, "Coalescent Inference for Epidemics with Latent Periods"
- 9:25 AM — Priscilla Lau, "A phylogenetic state-dependent Ornstein-Uhlenbeck model to jointly infer discrete and continuous trait evolution"
- 9:50 AM — Maximillian Newman, "There are no unlinked loci: How pedigrees couple neutral genealogies across the genome"
10:45-12:00 Session: Phylogenetics and Evolutionary Dynamics II
- 10:45 AM — Erick Matsen, "Transformer-powered mutation-selection models for antibody evolution"
- 11:10 AM — Annabel Large, "Thousand-parameter TKF-based models with latent and hierarchical structure predict protein sequence evolution competitively with million-parameter neural models"
- 11:35 AM — Adam Siepel, "Variational Inference with Node Embeddings (VINE) for scalable Bayesian phylogenetics"
1:30-2:30 Keynote II (Sally Otto), "Evolutionary Dynamics when Selection and Drift Occur in Haploid and Diploid Stages"
3:00-4:15 Session: Population and Statistical Genetics I (Chairs: Rori Rohlfs and Pier Palamara)
- 3:00 PM — Rori Rohlfs, "Working with wildly varying mutation rates in TRs to investigate their role in adaptation"
- 3:25 PM — Wenhan Lu, "Heritability and effect-size distribution of rare protein-coding variation"
- 3:50 PM — Xinyi Li, "Improving gene effect estimates with functionally informed hierarchical GeneBayes"
4:30-6:30 Poster Session II — Location: LKS Atrium (ground & first floor)
8:00-9:00 Coffee and Light Breakfast
9:00-10:15 Session: Population and Statistical Genetics II
- 9:00 AM — Pier Palamara, "Scalable inference and analysis of ancestral recombination graphs"
- 9:25 AM — Simon Gravel, "Inference in large pedigrees"
- 9:50 AM — Nicole Kleman, "Increased genetic diversity and residual stratification contribute to polygenic score prediction accuracy"
10:45-12:00 Session: Demographic Inference I (Chairs: Jonathan Terhorst and Anastasia Ignatieva)
- 10:45 AM — Anastasia Ignatieva, "Analysing haplotype structure in ARGs: From recombination suppression to phantom epistasis"
- 11:10 AM — Yulin Zhang, "Recovering signatures of archaic introgression using ancestral recombination graphs"
- 11:35 AM — Romain Fournier, "LDate: An expectation-maximization approach for dating ancient individuals based on linkage disequilibrium"
1:00-2:15 Session: Demographic Inference II
- 1:00 PM — Jonathan Terhorst, "Demographic inference using ARGs: theory, methods, and statistical foundations"
- 1:25 PM — James Kitchens, "Reconstructing the spatial histories of populations from gene trees"
- 1:50 PM — Yixin Zhu, "A new approach for estimating the fitness effects of missense and non-coding variants"
2:15-2:30 Closing Remarks