ArticlePLoS biology2024
Integrating phylogenies into single-cell RNA sequencing analysis allows comparisons across species, genes, and cells.
Article in PLoS biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
9 citing papers in PubMed.
- Systematic benchmarking and optimal strategy selection of cross-species integration methods.Briefings in bioinformatics · 2026Article
- Pulmonary organoid models demonstrate compositionally driven epithelial plasticity and immune polarization.iScience · 2026Article
- Review
- The cellular substrate of evolutionary novelty.Current biology : CB · 2025Review
- Lepidopteran scale cells derive from sensory organ precursors through a canonical lineage.Development (Cambridge, England) · 2025Article
- Benchmarking cross-species single-cell RNA-seq data integration methods: towards a cell type tree of life.Nucleic acids research · 2025Article
- TraitTrainR: accelerating large-scale simulation under models of continuous trait evolution.Bioinformatics advances · 2025Article
- The brain atlas of a subsocial bee reflects that of eusocial Hymenoptera.Genes, brain, and behavior · 2024Article
- Trees as a metaphor to understand relationships in biology.PLoS biology · 2024Article
Corrections and comments
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Authors and funding
3 authors.
Funding
Abstract
Comparisons of single-cell RNA sequencing (scRNA-seq) data across species can reveal links between cellular gene expression and the evolution of cell functions, features, and phenotypes. These comparisons evoke evolutionary histories, as depicted by phylogenetic trees, that define relationships between species, genes, and cells. This Essay considers each of these in turn, laying out challenges and solutions derived from a phylogenetic comparative approach and relating these solutions to previously proposed methods for the pairwise alignment of cellular dimensional maps. This Essay contends that species trees, gene trees, cell phylogenies, and cell lineages can all be reconciled as descriptions of the same concept-the tree of cellular life. By integrating phylogenetic approaches into scRNA-seq analyses, challenges for building informed comparisons across species can be overcome, and hypotheses about gene and cell evolution can be robustly tested.
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Registered trials
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