ArticleCell reports methods2021
Inference of high-resolution trajectories in single-cell RNA-seq data by using RNA velocity.
Article in Cell reports methods, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed.
- Article
- Biomaterial-mediated Cell Atlas: an insight from single-cell and spatial transcriptomics.Bioactive materials · 2025Review
- GNODEVAE: a graph-based ODE-VAE enhances clustering for single-cell data.BMC genomics · 2025Article
- Paradigms, innovations, and biological applications of RNA velocity: a comprehensive review.Briefings in bioinformatics · 2025Review
- SCIG: Machine learning uncovers cell identity genes in single cells by genetic sequence codes.Nucleic acids research · 2025Article
- Optimized network inference for immune diseased single cells.Frontiers in immunology · 2025Article
- Exploratory trajectory inference reveals convergent lineages for CD8 T cells in chronic LCMV infection.PloS one · 2025Article
- Aging and head and neck cancer insights from single cell and spatial transcriptomic analyses.Discover oncology · 2024Article
- Population-Level Cell Trajectory Inference Based on Gaussian Distributions.Biomolecules · 2024Article
- Building and analyzing metacells in single-cell genomics data.Molecular systems biology · 2024Review
- Spatial transition tensor of single cells.Nature methods · 2024Article
- Application of Single Cell Gene Expression Technologies to Neurotoxicology.Current opinion in toxicology · 2024Article
- Studying temporal dynamics of single cells: expression, lineage and regulatory networks.Biophysical reviews · 2024Review
- Inferring single-cell transcriptomic dynamics with structured latent gene expression dynamics.Cell reports methods · 2023Article
- LVPT: Lazy Velocity Pseudotime Inference Method.Biomolecules · 2023Article
- BZINB Model-Based Pathway Analysis and Module Identification Facilitates Integration of Microbiome and Metabolome Data.Microorganisms · 2023Article
- Adipose tissue at single-cell resolution.Cell metabolism · 2023Review
- BZINB model-based pathway analysis and module identification facilitates integration of microbiome and metabolome data.bioRxiv : the preprint server for biology · 2023Article
- Simulation-based inference of differentiation trajectories from RNA velocity fields.Cell reports methods · 2022Article
- Data analysis guidelines for single-cell RNA-seq in biomedical studies and clinical applications.Military Medical Research · 2022Review
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2 authors.
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Abstract
Trajectory inference (TI) methods infer cell developmental trajectory from single-cell RNA sequencing data. Current TI methods can be categorized into those using RNA velocity information and those using only single-cell gene expression data. The latter type of methods are restricted to certain trajectory structures, and cannot determine cell developmental direction. Recently proposed TI methods using RNA velocity information have limited accuracy. We present CellPath, a method that infers cell trajectories by integrating single-cell gene expression and RNA velocity information. CellPath overcomes the restrictions of TI methods that do not use RNA velocity information: it can find multiple high-resolution trajectories without constraints on the trajectory structure, and can automatically detect the direction of each trajectory path. We evaluate CellPath on both real and simulated datasets and show that CellPath finds more accurate and detailed trajectories than the state-of-the-art TI methods using or not using RNA velocity information.
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