Yun S. Song

University of California, Berkeley — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

52h-index14.0kcitations312works5.52yr avg
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Research Topics

Genomics and Phylogenetic Studies(65), Evolution and Genetic Dynamics(47), RNA and protein synthesis mechanisms(41), Genetic Associations and Epidemiology(40), Genetic diversity and population structure(39)

Publications312 total

Separating selection from mutation in antibody language models
2026Open Access
Separating selection from mutation in antibody language models
2026Open Access
Nucleotide context models outperform protein language models for predicting antibody affinity maturation
PLoS Computational Biology·2025· 1 citedOpen Access
A general framework for branch length estimation in Ancestral Recombination Graphs
Proceedings of the National Academy of Sciences·2025· 1 citedOpen Access
Moronic acid alleviates non-alcoholic fatty liver disease and fibrosis through PPARs-mediated lipidomic reprogramming
Phytomedicine·2025· 1 cited
Inference of germinal center evolutionary dynamics via simulation-based deep learning
2025Open Access
Inference of germinal center evolutionary dynamics via simulation-based deep learning
2025Open Access
Separating selection from mutation in antibody language models
2025Open Access
Author Correction: Robust and accurate Bayesian inference of genome-wide genealogies for hundreds of genomes
Nature Genetics·2025Open Access
Predicting functional constraints across evolutionary timescales with phylogeny-informed genomic language models
2025· 3 citedOpen Access
Robust and accurate Bayesian inference of genome-wide genealogies for hundreds of genomes
Nature Genetics·2025· 13 citedOpen Access
Robust and adaptive non-parametric tests for detecting general distributional shifts in gene expression
Cell Reports Methods·2025Open Access
Inference of germinal center evolutionary dynamics via simulation-based deep learning
2025Open Access
Learning antibody sequence constraints from allelic inclusion
Cell Systems·2025
ConvexML: Fast and Accurate Branch Length Estimation under Irreversible Mutation Models, Illustrated through Applications to CRISPR/Cas9-Based Lineage Tracing
Systematic Biology·2025· 2 citedOpen Access
A Sitewise Model of Natural Selection on Individual Antibodies via a Transformer–Encoder
Molecular Biology and Evolution·2025· 4 citedOpen Access
Construction of knowledge graph for gas polyethylene pipelines based on ALBERT-BiGRU-CRF
Scientific Reports·2025· 2 citedOpen Access
Ready Jurist One: Benchmarking Language Agents for Legal Intelligence in Dynamic Environments
arXiv (Cornell University)·2025Open Access
Future directions in prognostic modeling for dengue-induced severe hepatitis
World Journal of Hepatology·2025Open Access
Nucleotide context models outperform protein language models for predicting antibody affinity maturation
2025· 5 citedOpen Access
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Frequent Co-authors

Jeffrey P. Spence(8), Jonathan Terhorst(7), Jack Kamm(5), Nicholas Bhattacharya(5), Matthias Steinrücken(5), Anand Bhaskar(4), Sarah A. Tishkoff(3), Rasmus Nielsen(3), Neil Thomas(3), Jeffrey Chan(3), Paul A. Jenkins(3), George C. Hartoularos(3), David Lee(3), Yang Sun(3), Chun Ye(3), Jotun Hein(3), Fernando Racimo(2), Joshua Paul(2), Anders Albrechtsen(2), Roshan Rao(2)