ArticleNature methods2018
Alignment of single-cell trajectories to compare cellular expression dynamics.
Article in Nature methods, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 58 papers.
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Who cites it
58 citing papers in PubMed.
- Decoding epithelial-mesenchymal transitions with multi-omics.Nature reviews. Genetics · 2026Review
- A Human Accelerated Region Drives Opposing Heterochronic Changes in Craniofacial and Limb Development.bioRxiv : the preprint server for biology · 2026Article
- Interspecific diversity in the neuronal composition of the mammalian cortex arises from heterochrony in neurogenesis.The EMBO journal · 2026Article
- Cell-specific dedifferentiation inbioRxiv : the preprint server for biology · 2026Article
- Cell type-agnostic transcriptomic signatures enable uniform comparisons of neural maturation.PLoS biology · 2026Article
- A novel paradigm for single-cell annotation in stem cell research.Stem cell reports · 2025Review
- Latent plasticity of the human pancreas across development, health, and disease.bioRxiv : the preprint server for biology · 2025Article
- A single-cell rice atlas integrates multi-species data to reveal cis-regulatory evolution.Nature plants · 2025Article
- Cross-species comparison reveals therapeutic vulnerabilities halting glioblastoma progression.Nature communications · 2025Article
- Single-cell expression profiling of bat wing development.Nature communications · 2025Article
- Unbiased profiling of multipotency landscapes reveals spatial modulators of clonal fate biases.bioRxiv : the preprint server for biology · 2025Article
- Evolutionary divergence in CTCF-mediated chromatin topology drives transcriptional innovation in humans.Nature communications · 2025Article
- TrAGEDy-trajectory alignment of gene expression dynamics.Bioinformatics (Oxford, England) · 2025Article
- Single-cell Technology in Stem Cell Research.Current stem cell research & therapy · 2025Review
- CCL2 supports human hepatocytes long-term expansion for bioartificial liver therapy to relieve acute liver failure and extrahepatic complications.International journal of biological sciences · 2025Article
- Gene-level alignment of single-cell trajectories.Nature methods · 2025Article
- Single-cell stimulus-response gene expression trajectories reveal the stimulus specificities of dynamic responses by single macrophages.Molecular cell · 2024Article
- Deciphering the impact of aging on splenic endothelial cell heterogeneity and immunosenescence through single-cell RNA sequencing analysis.Immunity & ageing : I & A · 2024Article
- DELVE: feature selection for preserving biological trajectories in single-cell data.Nature communications · 2024Article
- Bringing CAM photosynthesis to the table: Paving the way for resilient and productive agricultural systems in a changing climate.Plant communications · 2024Review
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-cell RNA sequencing and high-dimensional cytometry can be used to generate detailed trajectories of dynamic biological processes such as differentiation or development. Here we present cellAlign, a quantitative framework for comparing expression dynamics within and between single-cell trajectories. By applying cellAlign to mouse and human embryonic developmental trajectories, we systematically delineate differences in the temporal regulation of gene expression programs that would otherwise be masked.
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Registered trials
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.