Article

ScTree: Scalable and robust mechanistic integration of epidemiological and genomic data for transmission tree inference

2024-11-21

Abstract excerpt

Phylodynamic models capture joint epidemiological-evolutionary dynamics during an outbreak, providing a powerful tool to enhance understanding and management of disease transmission. Existing phylodynamic approaches, however, mostly rely on various non-mechanistic or semi-mechanistic approximations of the underlying epidemiological-evolutionary process. Previous work by Lau et al . [1] has shown that full Bayesia...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 59cebdbb-fafb-568c-90a9-993892b654ea
DOI: 10.1101/2024.11.20.624621

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

ScTree: Scalable and robust mechanistic integration of epidemiological and genomic data for transmission tree inferenceDOI 10.1101/2024.11.20.624621Read

Developing methodologies and software for Bayesian inference of transmission trees from epidemiological and genetic dataSemantic proximity Read

Simultaneous inference of phylogenetic and transmission trees in infectious disease outbreaks.Semantic proximity Read

EpiFusion: Joint inference of the effective reproduction number by integrating phylodynamic and epidemiological modelling with particle filteringSemantic proximity Read

Epidemiological inference from pathogen genomes: A review of phylodynamic models and applicationsSemantic proximity Read

New method to reconstruct phylogenetic and transmission trees with sequence data from infectious disease outbreaksSemantic proximity Read

Biological causes and impacts of rugged tree landscapes in phylodynamic inferenceSemantic proximity Read

Mapping a viral phylogeny onto outbreak trees to improve host transmission inferenceSemantic proximity Read

Integrating Transmission Dynamics and Pathogen Evolution Through a Bayesian ApproachSemantic proximity Read

Relating phylogenetic trees to transmission trees of infectious disease outbreaks.Semantic proximity Read

Scalable deep-learning-based inference of time-varying transmission dynamics from outbreak phylogeniesSemantic proximity Read

PrioriTree: a utility for improving phylodynamic analyses in BEASTSemantic proximity Read

A computationally tractable birth-death model that combines phylogenetic and epidemiological dataSemantic proximity Read