ArticleMolecular systems biology2023
A single-cell RNA labeling strategy for measuring stress response upon tissue dissociation.
Article in Molecular systems biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Single-cell insights into maladaptive endothelial plasticity and therapeutic targets in diabetic vascular complications.Cardiovascular diabetology · 2026Review
- In vivo single-cell RNA metabolic labeling resolves early transcriptional responders in the regenerating zebrafish heart.Nature communications · 2026Article
- Mapping of Neutrophils in Cancers: Insights From Spatial Omics Technologies.European journal of immunology · 2026Review
- Spatial transcriptomics from pancreas and local draining lymph node tissue reveals a lymphotoxin-β signature in human type 1 diabetes.Cell reports · 2026Article
- Article
- Spatially resolved gene expression analysis illuminates location-specific functions in the reef-building coral Pocillopora acuta.PloS one · 2026Article
- Innovative Method for Fully Automated, Enzyme-Free Tissue Dissociation and Preparation for Single-Cell Analysis.Cellular and molecular bioengineering · 2025Article
- In vivo profiling of the endothelium using 'AngioTag' zebrafish.Angiogenesis · 2025Article
- A Cold-Active Protease Tissue Dissociation Protocol for the Preservation of the Tendon Fibroblast Transcriptome.Bio-protocol · 2025Article
- Single-Cell Analysis in Cerebrovascular Research: Primed for Breakthroughs and Clinical Impact.Stroke · 2025Review
- Ocular surface health and disease: insight from single-cell RNA sequencing.Frontiers in genetics · 2025Review
- Targeted barcoding of variable antibody domains and individual transcriptomes of the human B-cell repertoire using Link-Seq.PNAS nexus · 2025Article
- High content of nuclei-free low-quality cells in reference single-cell atlases: a call for more stringent quality control using nuclear fraction.BMC genomics · 2024Article
- Robust detection of clinically relevant features in single-cell RNA profiles of patient-matched fresh and formalin-fixed paraffin-embedded (FFPE) lung cancer tissue.Cellular oncology (Dordrecht, Netherlands) · 2024Article
- What Single Cell RNA Sequencing Has Taught Us about Chronic Obstructive Pulmonary Disease.Tuberculosis and respiratory diseases · 2024Article
- Status of single-cell RNA sequencing for reproductive toxicology in zebrafish and the transcriptomic trade-off.Current opinion in toxicology · 2024Article
- Dissecting the spatiotemporal diversity of adult neural stem cells.Molecular systems biology · 2024Article
- Single-Cell RNA-Sequencing of RVFV Infection.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Alveolar epithelial progenitor cells require Nkx2-1 to maintain progenitor-specific epigenomic state during lung homeostasis and regeneration.Nature communications · 2023Article
- A single-cell RNA labeling strategy for measuring stress response upon tissue dissociation.Molecular systems biology · 2023Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tissue dissociation, a crucial step in single-cell sample preparation, can alter the transcriptional state of a sample through the intrinsic cellular stress response. Here we demonstrate a general approach for measuring transcriptional response during sample preparation. In our method, transcripts made during dissociation are labeled for later identification upon sequencing. We found general as well as cell-type-specific dissociation response programs in zebrafish larvae, and we observed sample-to-sample variation in the dissociation response of mouse cardiomyocytes despite well-controlled experimental conditions. Finally, we showed that dissociation of the mouse hippocampus can lead to the artificial activation of microglia. In summary, our approach facilitates experimental optimization of dissociation procedures as well as computational removal of transcriptional perturbation response.
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