ArticleThe Plant cell2024
Best practices for the execution, analysis, and data storage of plant single-cell/nucleus transcriptomics.
Article in The Plant cell, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 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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Who cites it
36 citing papers in PubMed.
- Integrating cross-omics research through FAIR Digital Objects with DataPLANT.Journal of integrative bioinformatics · 2026Article
- Unlocking the full potential of spatial omics in plants: practical challenges, solutions, and a path forward.The Plant cell · 2026Review
- Decoding the landscape of cell-type-specific co-expressed transcription factors in soybean.Nature plants · 2026Article
- Cell-based crop phenotyping for future climates.The New phytologist · 2026Review
- Advances in single-cell and spatial multi-omics for plant development and stress responses.Plant diversity · 2026Review
- Integrating single-cell omic techniques to resolve the spatio-temporal complexity of arbuscular mycorrhizal symbiosis.Journal of experimental botany · 2026Review
- Single-cell insights into plant growth, adaptation, and evolution.Journal of integrative plant biology · 2026Review
- SC-framework: A robust and FAIR semi-interactive environment for single-cell resolution datasets.iScience · 2026Article
- Epigenetic orchestration of sugar signaling in plant development and stress adaptation.Horticulture research · 2026Article
- The developing leaf of the wild grass Brachypodium distachyon at single-cell resolution.The Plant cell · 2026Article
- Benchmarking plant single cell RNA-sequencing sample processing strategies.The EMBO journal · 2026Article
- Evolutionary diversity of cell-type-specific expression and stress response in Brassicaceae roots.Nature communications · 2026Article
- Evolutionary diversity of cell-type-specific expression and stress response in Brassicaceae roots.bioRxiv : the preprint server for biology · 2026Article
- Chemically guided single-cell transcriptomics reveals sulfotransferase-mediated scaffold remodeling in securinine biosynthesis.Nature communications · 2026Article
- Integrated experimental and computational workflows for single-cell transcriptomics in plants.Plant methods · 2026Article
- Single-Cell/Nucleus RNA-Sequencing for Phytohormone Signaling in Plants.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Identification of Phloem Cell Transcriptome via Single-Cell RNA-Sequencing.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Why "Where" Matters as Much as "How Much": Single-Cell and Spatial Transcriptomics in Plants.International journal of molecular sciences · 2025Review
- Next-generation method for preparing plant cells for single-cell RNA sequencing.Nature methods · 2025Article
- FX-Cell: a method for single-cell RNA sequencing on difficult-to-digest and cryopreserved plant samples.Nature methods · 2025Article
Corrections and comments
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Authors and funding
21 authors.
Funding
Abstract
Single-cell and single-nucleus RNA-sequencing technologies capture the expression of plant genes at an unprecedented resolution. Therefore, these technologies are gaining traction in plant molecular and developmental biology for elucidating the transcriptional changes across cell types in a specific tissue or organ, upon treatments, in response to biotic and abiotic stresses, or between genotypes. Despite the rapidly accelerating use of these technologies, collective and standardized experimental and analytical procedures to support the acquisition of high-quality data sets are still missing. In this commentary, we discuss common challenges associated with the use of single-cell transcriptomics in plants and propose general guidelines to improve reproducibility, quality, comparability, and interpretation and to make the data readily available to the community in this fast-developing field of research.
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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.