Bayesian inference of ancestral recombination graphs

Bayesian inference of ancestral recombination graphs

We present a novel algorithm, implemented in the software ARGinfer, for probabilistic inference of the Ancestral Recombination Graph under the Coalescent with Recombination. Our Markov Chain Monte Carlo algorithm takes advantage of the Succinct Tree Sequence data structure that has allowed great adv...

Volledige beschrijving

Bibliografische gegevens
Hoofdauteurs:	Kelleher, JT, Mahmoudi, A, Koskela, J, Chan, Y-B, Balding, D
Formaat:	Journal article
Taal:	English
Gepubliceerd in:	Public Library of Science 2022

Gelijkaardige items

Bayesian inference of ancestral recombination graphs.
door: Ali Mahmoudi, et al.
Gepubliceerd in: (2022-03-01)

A general and efficient representation of ancestral recombination graphs
door: Wong, HY, et al.
Gepubliceerd in: (2024)

Genome-wide inference of ancestral recombination graphs.
door: Matthew D Rasmussen, et al.
Gepubliceerd in: (2014-01-01)

Inference of Ancestral Recombination Graphs through Topological Data Analysis.
door: Pablo G Cámara, et al.
Gepubliceerd in: (2016-08-01)

tstrait: a quantitative trait simulator for ancestral recombination graphs
door: Tagami, D, et al.
Gepubliceerd in: (2024)

Constructing minimal ancestral recombination graphs.
door: Song, Y, et al.
Gepubliceerd in: (2005)

Biobank-scale ancestral recombination graphs: inference and applications to the analysis of complex traits
door: Zhang, BC
Gepubliceerd in: (2022)

Biobank-scale inference of ancestral recombination graphs enables genealogical analysis of complex traits
door: Zhang, BC, et al.
Gepubliceerd in: (2023)

Simultaneous Inference of Past Demography and Selection from the Ancestral Recombination Graph under the Beta Coalescent
door: Korfmann, Kevin, et al.
Gepubliceerd in: (2024-03-01)

Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination.
door: Fangfang Guo, et al.
Gepubliceerd in: (2022-08-01)

A minimal descriptor of an ancestral recombinations graph
door: Palamara Pier, et al.
Gepubliceerd in: (2011-02-01)

Bayesian inference of ancestral dates on bacterial phylogenetic trees
door: Didelot, X, et al.
Gepubliceerd in: (2018)

Mapping gene flow between ancient hominins through demography-aware inference of the ancestral recombination graph.
door: Melissa J Hubisz, et al.
Gepubliceerd in: (2020-08-01)

TreeKnit: Inferring ancestral reassortment graphs of influenza viruses.
door: Pierre Barrat-Charlaix, et al.
Gepubliceerd in: (2022-08-01)

ReCombinatorics : the algorithmics of ancestral recombination graphs and explicit phylogenetic networks /
door: 581761 Gusfield, Dan author
Gepubliceerd in: ([201)

The era of the ARG: An introduction to ancestral recombination graphs and their significance in empirical evolutionary genomics.
door: Alexander L Lewanski, et al.
Gepubliceerd in: (2024-01-01)

The era of the ARG: An introduction to ancestral recombination graphs and their significance in empirical evolutionary genomics
door: Alexander L. Lewanski, et al.
Gepubliceerd in: (2024-01-01)

Fast bayesian inference with batch bayesian quadrature via kernel recombination
door: Adachi, M, et al.
Gepubliceerd in: (2022)

A Bayesian approach to infer recombination patterns in coronaviruses
door: Nicola F. Müller, et al.
Gepubliceerd in: (2022-07-01)

Causal discovery with ancestral graphs
door: Hu, Z
Gepubliceerd in: (2023)

Ancestral inference from gene trees
door: Griffiths, R
Gepubliceerd in: (2001)

Phylogenetic inference under recombination using Bayesian stochastic topology selection.
door: Webb, A, et al.
Gepubliceerd in: (2009)

Ancestral inference on gene trees under selection.
door: Coop, G, et al.
Gepubliceerd in: (2004)

Ancestral inference in population genetics models with selection
door: Stephens, M, et al.
Gepubliceerd in: (2003)

Bayesian inference of admixture graphs on Native American and Arctic populations.
door: Svend V Nielsen, et al.
Gepubliceerd in: (2023-02-01)

Bayesian inference of a spectral graph model for brain oscillations
door: Huaqing Jin, et al.
Gepubliceerd in: (2023-10-01)

Towards standard imsets for maximal ancestral graphs
door: Hu, Z, et al.
Gepubliceerd in: (2024)

INFERENCE IN FORENSIC IDENTIFICATION
door: Balding, D, et al.
Gepubliceerd in: (1995)

AutoBayes: Automated Bayesian Graph Exploration for Nuisance- Robust Inference
door: Andac Demir, et al.
Gepubliceerd in: (2021-01-01)

Analysis on the reconstruction accuracy of the Fitch method for inferring ancestral states
door: Grünewald Stefan, et al.
Gepubliceerd in: (2011-01-01)

Ancestral genome inference using a genetic algorithm approach.
door: Nan Gao, et al.
Gepubliceerd in: (2013-01-01)

Ancestral Reconstruction and Investigations of Genomic Recombination on some Pentapetalae Chloroplasts
door: Guyeux Christophe, et al.
Gepubliceerd in: (2019-12-01)

Benchmarking Tree and Ancestral Sequence Inference for B Cell Receptor Sequences
door: Kristian Davidsen, et al.
Gepubliceerd in: (2018-10-01)

Bayesian Network-Based Knowledge Graph Inference for Highway Transportation Safety Risks
door: Luo Wenhui, et al.
Gepubliceerd in: (2021-01-01)

Estimating evolutionary and demographic parameters via ARG-derived IBD
door: Huang, Z, et al.
Gepubliceerd in: (2025)

Inferring identify from DNA profile evidence.
door: Balding, D, et al.
Gepubliceerd in: (1995)

SlidingBayes: exploring recombination using a sliding window approach based on Bayesian phylogenetic inference.
door: Paraskevis, D, et al.
Gepubliceerd in: (2005)

Hierarchical Inference of the Lensing Convergence from Photometric Catalogs with Bayesian Graph Neural Networks
door: Ji Won Park, et al.
Gepubliceerd in: (2023-01-01)

Character-State Reconstruction to Infer Ancestral Protein-Protein Interaction Patterns
door: Florian Rümpler, et al.
Gepubliceerd in: (2015-08-01)

Bayesian inference of transition matrices from incomplete graph data with a topological prior
door: Vincenzo Perri, et al.
Gepubliceerd in: (2023-10-01)