ArticleNature computational science2021
Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps.
Article in Nature computational science, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Phylogenomic subsampling and upsampling for efficient evolutionary analyses of big data.Molecular biology and evolution · 2026Article
- Phylogenomic subsampling and upsampling for efficient evolutionary analyses of big data.bioRxiv : the preprint server for biology · 2026Article
- A novel COE-D8-fosfomycin conjugate effectively combats first-line antibiotic-resistant uropathogenic Escherichia coli.PloS one · 2026Article
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- Completing a molecular timetree of Afrotheria.Frontiers in bioinformatics · 2025Article
- Identification of GiOMT gene family in Glycyrrhiza inflata bat and expression analysis under UV-B stresses.BMC genomics · 2024Article
- MEGA12: Molecular Evolutionary Genetic Analysis Version 12 for Adaptive and Green Computing.Molecular biology and evolution · 2024Article
- Completing a molecular timetree of primates.Frontiers in bioinformatics · 2024Article
- Robustness of Felsenstein's Versus Transfer Bootstrap Supports With Respect to Taxon Sampling.Systematic biology · 2023Article
- Incongruence in the phylogenomics era.Nature reviews. Genetics · 2023Review
- Molecular timetrees using relaxed clocks and uncertain phylogenies.Frontiers in bioinformatics · 2023Article
- Taming the Selection of Optimal Substitution Models in Phylogenomics by Site Subsampling and Upsampling.Molecular biology and evolution · 2022Article
- Recent progress on methods for estimating and updating large phylogenies.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Review
- Embracing Green Computing in Molecular Phylogenetics.Molecular biology and evolution · 2022Article
- MOCA for Integrated Analysis of Gene Expression and Genetic Variation in Single Cells.Frontiers in genetics · 2022Article
- Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps.Nature computational science · 2021Article
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Authors and funding
2 authors.
Funding
Abstract
Felsenstein's bootstrap approach is widely used to assess confidence in species relationships inferred from multiple sequence alignments. It resamples sites randomly with replacement to build alignment replicates of the same size as the original alignment and infers a phylogeny from each replicate dataset. The proportion of phylogenies recovering the same grouping of species is its bootstrap confidence limit. But, standard bootstrap imposes a high computational burden in applications involving long sequence alignments. Here, we introduce the bag of little bootstraps approach to phylogenetics, bootstrapping only a few little samples, each containing a small subset of sites. We report that the median bagging of bootstrap confidence limits from little samples produces confidence in inferred species relationships similar to standard bootstrap but in a fraction of computational time and memory. Therefore, the little bootstraps approach can potentially enhance the rigor, efficiency, and parallelization of big data phylogenomic analyses.
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