Inference of germinal center evolutionary dynamics via simulation-based deep learning
Fuente:
arXiv
Saved in:
| Main Authors: | Ralph, Duncan K, Bakis, Athanasios G, Galloway, Jared, Vora, Ashni A, Araki, Tatsuya, Victora, Gabriel D, Song, Yun S, DeWitt, William S, Matsen IV, Frederick A |
|---|---|
| Format: | Preprint |
| Published: |
2025
|
| Subjects: | |
| Online Access: | |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
Similar Items
Tree rearrangement graphs admit paths of decreasing Robinson-Foulds distance
by: Collienne, Lena, et al.
Published: (2025)
by: Collienne, Lena, et al.
Published: (2025)
Assessing the Validity of the Fixed Tree Topology Assumption in Phylodynamic Inference
by: Fourment, Mathieu, et al.
Published: (2025)
by: Fourment, Mathieu, et al.
Published: (2025)
Generalizing matrix representations to fully heterochronous ranked tree shapes
by: Jennings-Shaffer, Chris, et al.
Published: (2025)
by: Jennings-Shaffer, Chris, et al.
Published: (2025)
PhyloVAE: Unsupervised Learning of Phylogenetic Trees via Variational Autoencoders
by: Xie, Tianyu, et al.
Published: (2025)
by: Xie, Tianyu, et al.
Published: (2025)
Torchtree: flexible phylogenetic model development and inference using PyTorch
by: Fourment, Mathieu, et al.
Published: (2024)
by: Fourment, Mathieu, et al.
Published: (2024)
The structure of deviations from maximum parsimony for densely-sampled data and applications for clade support estimation
by: Howard-Snyder, William, et al.
Published: (2023)
by: Howard-Snyder, William, et al.
Published: (2023)
Bayesian inference of antibody evolutionary dynamics using multitype branching processes
by: Bakis, Athanasios G., et al.
Published: (2025)
by: Bakis, Athanasios G., et al.
Published: (2025)
Finding high posterior density phylogenies by systematically extending a directed acyclic graph
by: Jennings-Shaffer, Chris, et al.
Published: (2024)
by: Jennings-Shaffer, Chris, et al.
Published: (2024)
Mean-field interacting multi-type birth-death processes with a view to applications in phylodynamics
by: DeWitt, William S., et al.
Published: (2023)
by: DeWitt, William S., et al.
Published: (2023)
Vector encoding of phylogenetic trees by ordered leaf attachment
by: Richman, Harry, et al.
Published: (2025)
by: Richman, Harry, et al.
Published: (2025)
Foundations of ecological and evolutionary change
by: Duthie, A. Bradley, et al.
Published: (2024)
by: Duthie, A. Bradley, et al.
Published: (2024)
Conditionally Site-Independent Neural Evolution of Antibody Sequences
by: Lu, Stephen Zhewen, et al.
Published: (2026)
by: Lu, Stephen Zhewen, et al.
Published: (2026)
On Possible Indicators of Negative Selection in Germinal Centers
by: Ottino-Loffler, Bertrand, et al.
Published: (2023)
by: Ottino-Loffler, Bertrand, et al.
Published: (2023)
On the importance of assessing topological convergence in Bayesian phylogenetic inference
by: Brusselmans, Marius, et al.
Published: (2024)
by: Brusselmans, Marius, et al.
Published: (2024)
Eco-evolutionary dynamics of adapting pathogens and host immunity
by: Barrat-Charlaix, Pierre, et al.
Published: (2024)
by: Barrat-Charlaix, Pierre, et al.
Published: (2024)
Exact and efficient phylodynamic simulation from arbitrarily large populations
by: Celentano, Michael, et al.
Published: (2024)
by: Celentano, Michael, et al.
Published: (2024)
An evolutionary process without variation and selection
by: Gabora, Liane, et al.
Published: (2024)
by: Gabora, Liane, et al.
Published: (2024)
Stochastic fluctuations in an eco-evolutionary game dynamics with environmental feedbacks
by: Wang, Chao, et al.
Published: (2025)
by: Wang, Chao, et al.
Published: (2025)
Flexible inference of evolutionary accumulation dynamics using uncertain observational data
by: Renz, Jessica, et al.
Published: (2025)
by: Renz, Jessica, et al.
Published: (2025)
Extracting useful information about reversible evolutionary processes from irreversible evolutionary accumulation models
by: Johnston, Iain G.
Published: (2026)
by: Johnston, Iain G.
Published: (2026)
Interplay between evolutionary and epidemic time scales challenges the outcome of control policies
by: Lamata-Otín, Santiago, et al.
Published: (2026)
by: Lamata-Otín, Santiago, et al.
Published: (2026)
Inhomogeneous continuous-time Markov chains to infer flexible time-varying evolutionary rates
by: Datta, Pratyusa, et al.
Published: (2025)
by: Datta, Pratyusa, et al.
Published: (2025)
Two timescales in stochastic evolutionary games
by: Lessard, Sabin
Published: (2024)
by: Lessard, Sabin
Published: (2024)
An evolutionary medicine and life history perspective on aging and disease: Trade-offs, hyperfunction, and mismatch
by: Aronoff, Jacob E., et al.
Published: (2025)
by: Aronoff, Jacob E., et al.
Published: (2025)
Accurate stochastic simulation algorithm for multiscale models of infectious diseases
by: Yin, Yuan, et al.
Published: (2024)
by: Yin, Yuan, et al.
Published: (2024)
Critically assessing atavism, an evolution-centered and deterministic hypothesis on cancer
by: Daignan-Fornier, Bertrand, et al.
Published: (2024)
by: Daignan-Fornier, Bertrand, et al.
Published: (2024)
Detection of evolutionary shifts in variance under an Ornsten-Uhlenbeck model
by: Zhang, Wensha, et al.
Published: (2023)
by: Zhang, Wensha, et al.
Published: (2023)
Estimation of the incidence rate and mortality rate ratio for chronic conditions based on aggregated current status data
by: Brinks, Ralph
Published: (2025)
by: Brinks, Ralph
Published: (2025)
Universal characterization of epitope immunodominance from a multi-scale model of clonal competition in germinal centers
by: Ferretti, Federica, et al.
Published: (2023)
by: Ferretti, Federica, et al.
Published: (2023)
Mantodea phylogenomics provides new insights into X-chromosome progression and evolutionary radiation
by: Liu, Hangwei, et al.
Published: (2025)
by: Liu, Hangwei, et al.
Published: (2025)
Insecticide treated bed net use and elimination of malaria in Sub-Saharan African countries: Assessing the Global Technical Strategy (GTS) using an evolutionary game approach
by: Laxmi, et al.
Published: (2024)
by: Laxmi, et al.
Published: (2024)
Random evolutionary games and random polynomials
by: Duong, Manh Hong, et al.
Published: (2023)
by: Duong, Manh Hong, et al.
Published: (2023)
Posterior bounds on divergence time of two sequences under dependent-site evolutionary models
by: Mathews, Joseph, et al.
Published: (2025)
by: Mathews, Joseph, et al.
Published: (2025)
The rights and wrongs of rescaling in population genetics simulations
by: Johri, Parul, et al.
Published: (2026)
by: Johri, Parul, et al.
Published: (2026)
Eco-evolutionary constraints for the endemicity of rapidly evolving viruses
by: Soriano-Paños, David
Published: (2024)
by: Soriano-Paños, David
Published: (2024)
Siamese networks for Poincaré embeddings and the reconstruction of evolutionary trees
by: Carvallo, Ciro, et al.
Published: (2024)
by: Carvallo, Ciro, et al.
Published: (2024)
Spatial structure facilitates evolutionary rescue by drug resistance
by: Fruet, Cecilia, et al.
Published: (2024)
by: Fruet, Cecilia, et al.
Published: (2024)
Fitness Inference in Presence of Migrations between Coupled Evolving Populations
by: Huang, Yu-Han, et al.
Published: (2026)
by: Huang, Yu-Han, et al.
Published: (2026)
Mutation mitigates finite-size effects in spatial evolutionary games
by: Shen, Chen, et al.
Published: (2024)
by: Shen, Chen, et al.
Published: (2024)
Modeling of Pneumococcal and Respiratory Syncytial Virus Pneumonia: An Epidemiological Review, with Statistical Inference
by: Sutradhar, Rupchand, et al.
Published: (2026)
by: Sutradhar, Rupchand, et al.
Published: (2026)
Similar Items
-
Tree rearrangement graphs admit paths of decreasing Robinson-Foulds distance
by: Collienne, Lena, et al.
Published: (2025) -
Assessing the Validity of the Fixed Tree Topology Assumption in Phylodynamic Inference
by: Fourment, Mathieu, et al.
Published: (2025) -
Generalizing matrix representations to fully heterochronous ranked tree shapes
by: Jennings-Shaffer, Chris, et al.
Published: (2025) -
PhyloVAE: Unsupervised Learning of Phylogenetic Trees via Variational Autoencoders
by: Xie, Tianyu, et al.
Published: (2025) -
Torchtree: flexible phylogenetic model development and inference using PyTorch
by: Fourment, Mathieu, et al.
Published: (2024)