ArticleNature protocols2021
Extraction of nuclei from archived postmortem tissues for single-nucleus sequencing applications.
Article in Nature protocols, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers, 2 of them syntheses that pooled it.
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The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
26 citing papers in PubMed, 2 syntheses or guidelines pooled it, 41 citations in OpenAlex.
- Revealing the molecular landscape of human placenta: a systematic review and meta-analysis of single-cell RNA sequencing studies.Human reproduction update · 2024Pooled it
- Cell type specific transcriptomic differences in depression show similar patterns between males and females but implicate distinct cell types and genes.Nature communications · 2023Pooled it
- Periventricular gradient pathology is linked to ependymal reactivity and cell adhesion disruption in multiple sclerosis.Nature neuroscience · 2026Article
- Optimized nuclei isolation and snRNA-seq reveal oligodendrocyte pathway dysregulation in MOGHE brain tissue from pediatric patients.Scientific reports · 2026Article
- Cell-type-resolved transcriptomic landscape of human focal cortical dysplasia.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Comparative analysis of nuclei isolation methods for brain single-nucleus RNA sequencing.Cell reports methods · 2026Article
- Single-nucleus RNA sequencing reveals the distinct heterogeneity of primary pulmonary sarcomas (PPS) and pulmonary sarcomatoid carcinoma (PSC).Clinical and translational medicine · 2026Article
- From inflammation to remodelling: A novel BASP1Journal of advanced research · 2025Article
- Review
- Single-nucleus transcriptomics reveals a distinct microglial state and increased MSR1-mediated phagocytosis as common features across dementia subtypes.Genome medicine · 2025Article
- Single-nucleus chromatin accessibility profiling identifies cell types and functional variants contributing to major depression.Nature genetics · 2025Article
- snCED-seq: high-fidelity cryogenic enzymatic dissociation of nuclei for single-nucleus RNA-seq of FFPE tissues.Nature communications · 2025Article
- ALS molecular subtypes are a combination of cellular and pathological features learned by deep multiomics classifiers.Cell reports · 2025Article
- A versatile and efficient method to isolate nuclei from low-input cryopreserved tissues for single-nuclei transcriptomics.Scientific reports · 2025Article
- Application of computational algorithms for single-cell RNA-seq and ATAC-seq in neurodegenerative diseases.Briefings in functional genomics · 2025Review
- Lipidomics and temporal-spatial distribution of organelle lipid.Journal of biological methods · 2025Review
- Single-Cell Transcriptomics Sheds Light on Tumor Evolution: Perspectives from City of Hope's Clinical Trial Teams.Journal of clinical medicine · 2024Article
- Overabundant endocannabinoids in neurons are detrimental to cognitive function.bioRxiv : the preprint server for biology · 2024Article
- Single-nucleus RNA sequencing reveals glial cell type-specific responses to ischemic stroke in male rodents.Nature communications · 2024Article
- Single nucleus RNA sequencing reveals glial cell type-specific responses to ischemic stroke.bioRxiv : the preprint server for biology · 2023Article
Corrections and comments
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Authors and funding
10 authors at 4 institutions in 3 countries.
Funding
Abstract
Single-cell and single-nucleus sequencing techniques are a burgeoning field with various biological, biomedical and clinical applications. Numerous high- and low-throughput methods have been developed for sequencing the RNA and DNA content of single cells. However, for all these methods, the key requirement is high-quality input of a single-cell or single-nucleus suspension. Preparing such a suspension is the limiting step when working with fragile, archived tissues of variable quality. This hurdle can prevent such tissues from being extensively investigated with single-cell technologies. We describe a protocol for preparing single-nucleus suspensions within the span of a few hours that reliably works for multiple postmortem and archived tissue types using standard laboratory equipment. The stages of the protocol include tissue preparation and dissociation, nuclei extraction, and nuclei concentration assessment and capture. The protocol is comparable to other published protocols but does not require fluorescence-assisted nuclei sorting (FANS) or ultracentrifugation. The protocol can be carried out by a competent graduate student familiar with basic laboratory techniques and equipment. Moreover, these preparations are compatible with single-nucleus (sn)RNA-seq and assay for transposase-accessible chromatin (ATAC)-seq using the 10X Genomics Chromium system. The protocol reliably results in efficient capture of single nuclei for high-quality snRNA-seq libraries.
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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.