ArticleCommunications biology2023
Methanol fixation is the method of choice for droplet-based single-cell transcriptomics of neural cells.
Article in Communications biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed.
- Single-cell RNA-seq reveals trans-sialidase-like superfamily gene expression heterogeneity ineLife · 2026Article
- A Field-Friendly, Non-Toxic Fixative for Integrated Morphological and Molecular Research in Non-Model Invertebrates.Ecology and evolution · 2026Article
- Methodologies for Sample Multiplexing and Computational Deconvolution in Single-Cell Sequencing.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Review
- Multisite Assessment of Methods for Cell Preservation Upstream of Single-Cell RNA Sequencing.Journal of biomolecular techniques : JBT · 2026Article
- Effects of biological fixation methods on stimulated Raman scattering microscopy signal.bioRxiv : the preprint server for biology · 2025Article
- Multi-site Assessment of Methods for Cell Preservation Upstream of Single Cell RNA Sequencing.bioRxiv : the preprint server for biology · 2025Article
- Quantification of transcript isoforms at the single-cell level using SCALPEL.Nature communications · 2025Article
- Simple In-Cell Processing Enables Deep Proteome Analysis of Low-InputAnalytical chemistry · 2025Article
- Mitochondrial dysfunction drives a neuronal exhaustion phenotype in methylmalonic aciduria.Communications biology · 2025Article
- inDrops-2: a flexible, versatile and cost-efficient droplet microfluidic approach for high-throughput scRNA-seq of fresh and preserved clinical samples.Nucleic acids research · 2025Article
- Optimized methods for scRNA-seq and snRNA-seq of skeletal muscle stored in nucleic acid stabilizing preservative.Communications biology · 2025Article
- FixNCut: single-cell genomics through reversible tissue fixation and dissociation.Genome biology · 2024Article
- Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening.NAR genomics and bioinformatics · 2024Article
- Single-cell transcriptomics refuels the exploration of spiralian biology.Briefings in functional genomics · 2023Review
- Effect of methanol fixation on single-cell RNA sequencing of the murine dentate gyrus.Frontiers in molecular neuroscience · 2023Article
Corrections and comments
- Erratum issued
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The main critical step in single-cell transcriptomics is sample preparation. Several methods have been developed to preserve cells after dissociation to uncouple sample handling from library preparation. Yet, the suitability of these methods depends on the cell types to be processed. In this project, we perform a systematic comparison of preservation methods for droplet-based single-cell RNA-seq on neural and glial cells derived from induced pluripotent stem cells. Our results show that while DMSO provides the highest cell quality in terms of RNA molecules and genes detected per cell, it strongly affects the cellular composition and induces the expression of stress and apoptosis genes. In contrast, methanol fixed samples display a cellular composition similar to fresh samples and provide a good cell quality and little expression biases. Taken together, our results show that methanol fixation is the method of choice for performing droplet-based single-cell transcriptomics experiments on neural cell populations.
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