ReviewPLoS genetics2024
The era of the ARG: An introduction to ancestral recombination graphs and their significance in empirical evolutionary genomics.
Review in PLoS genetics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 70 papers.
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Who cites it
70 citing papers in PubMed.
- Article
- Genetics and genomics of hybridization.Nature reviews. Genetics · 2026Review
- Spatial inference of ancestor locations suggests northern refugia for canopy-forming kelps in the Pacific Northwest.The New phytologist · 2026Article
- ARGformer: learning on ancestral recombination graphs with transformers.Bioinformatics (Oxford, England) · 2026Article
- Interactive exploration of biobank-scale ancestral recombination graphs with Lorax.Bioinformatics (Oxford, England) · 2026Article
- ARGscape: a modular, interactive tool for manipulation of spatiotemporal ancestral recombination graphs.Bioinformatics (Oxford, England) · 2026Article
- Population genomics of yellow-eyed penguins uncovers subspecies divergence and candidate genes linked to respiratory distress syndrome.Nature ecology & evolution · 2026Article
- Scalable ARG-free Detection of Denisovan-mediated Superarchaic Introgression Reveals Heterogeneous Patterns across Populations.bioRxiv : the preprint server for biology · 2026Article
- Unlocking the potential of pedigree genomics via precision governance.Nature reviews. Genetics · 2026Article
- ALGI: Sparse Convolutional Denoising Autoencoder Utilizing Local Genomic Information for Genotype Imputation.Animals : an open access journal from MDPI · 2026Article
- Genetic prediction with ARG-powered linear algebra.Genetics · 2026Article
- Computing coalescence rates for complex demographies and sampling configurations.bioRxiv : the preprint server for biology · 2026Article
- Assessing the Potential of Ancient Protein Sequences in the Study of Hominid Evolution.Genome biology and evolution · 2026Article
- Estimating Waiting Distances between Genealogy Changes under a Multi-Species Extension of the Sequentially Markov Coalescent.Systematic biology · 2026Article
- Interactive exploration of biobank-scale ancestral recombination graphs with Lorax.bioRxiv : the preprint server for biology · 2026Article
- Recent advances in methods to characterize archaic introgression in modern humans.Genome research · 2026Review
- A Statistical Framework to Infer the Mutation Model of Tandem Repeat Variants.bioRxiv : the preprint server for biology · 2026Article
- Tracing the evolutionary histories of ultra-rare variants using variational dating of large ancestral recombination graphs.bioRxiv : the preprint server for biology · 2026Article
- Article
- On ARGs, pedigrees, and genetic relatedness matrices.Genetics · 2026Article
10 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
In the presence of recombination, the evolutionary relationships between a set of sampled genomes cannot be described by a single genealogical tree. Instead, the genomes are related by a complex, interwoven collection of genealogies formalized in a structure called an ancestral recombination graph (ARG). An ARG extensively encodes the ancestry of the genome(s) and thus is replete with valuable information for addressing diverse questions in evolutionary biology. Despite its potential utility, technological and methodological limitations, along with a lack of approachable literature, have severely restricted awareness and application of ARGs in evolution research. Excitingly, recent progress in ARG reconstruction and simulation have made ARG-based approaches feasible for many questions and systems. In this review, we provide an accessible introduction and exploration of ARGs, survey recent methodological breakthroughs, and describe the potential for ARGs to further existing goals and open avenues of inquiry that were previously inaccessible in evolutionary genomics. Through this discussion, we aim to more widely disseminate the promise of ARGs in evolutionary genomics and encourage the broader development and adoption of ARG-based inference.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.