ArticleNature methods2022
Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition.
Article in Nature methods, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
What it found
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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.
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
30 citing papers in PubMed, 70 citations in OpenAlex.
- Quantitative imaging of dynamic processes in intestinal organoids.Nature protocols · 2026Review
- Precancerous microenvironment: A signalling perspective.Current opinion in cell biology · 2026Review
- Machine learning integration of bulk and single-cell RNA-Seq data reveals COPS2 as a central immune regulator in deep vein thrombosis.American journal of translational research · 2026Article
- A deep learning-based computational pipeline predicts developmental outcome in retinal organoids.PLoS biology · 2026Article
- Single-Cell Transcriptomics in Inherited Retinal Dystrophies: Current Findings and Emerging Perspectives.Genes · 2025Review
- Nutrient sensing in intestinal stem cell: Linking dietary nutrients to cellular metabolic regulation.World journal of stem cells · 2025Review
- Engineering next-generation microfluidic technologies for single-cell phenomics.Nature genetics · 2025Review
- Review
- Food hardness preference reveals multisensory contributions of fly larval gustatory organs in behaviour and physiology.PLoS biology · 2025Article
- GEMLI: Gene Expression Memory-Based Lineage Inference from Single-Cell RNA-Sequencing Datasets.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Application and challenges of tumor organoid technology in precision immunotherapy.Frontiers in immunology · 2025Review
- Patient-Derived Tumor Organoids Combined with Function-Associated ScRNA-Seq for Dissecting the Local Immune Response of Lung Cancer.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Microfluidic Biochips for Single-Cell Isolation and Single-Cell Analysis of Multiomics and Exosomes.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Review
- Next-Generation Sequencing-Based Spatial Transcriptomics: A Perspective from Barcoding Chemistry.JACS Au · 2024Review
- Gene-expression memory-based prediction of cell lineages from scRNA-seq datasets.Nature communications · 2024Article
- Enhancing single-cell encapsulation in droplet microfluidics with fine-tunable on-chip sample enrichment.Microsystems & nanoengineering · 2024Article
- Single-cell sequencing of individual retinal organoids reveals determinants of cell-fate heterogeneity.Cell reports methods · 2023Article
- spinDrop: a droplet microfluidic platform to maximise single-cell sequencing information content.Nature communications · 2023Article
- HIV-1 transmission: modelling and direct visualization in the third dimension.Microscopy (Oxford, England) · 2023Review
- Single-cell sequencing of individual retinal organoids reveals determinants of cell fate heterogeneity.bioRxiv : the preprint server for biology · 2023Article
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Authors and funding
16 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-cell RNA sequencing (scRNA-seq) approaches have transformed our ability to resolve cellular properties across systems, but are currently tailored toward large cell inputs (>1,000 cells). This renders them inefficient and costly when processing small, individual tissue samples, a problem that tends to be resolved by loading bulk samples, yielding confounded mosaic cell population read-outs. Here, we developed a deterministic, mRNA-capture bead and cell co-encapsulation dropleting system, DisCo, aimed at processing low-input samples (<500 cells). We demonstrate that DisCo enables precise particle and cell positioning and droplet sorting control through combined machine-vision and multilayer microfluidics, enabling continuous processing of low-input single-cell suspensions at high capture efficiency (>70%) and at speeds up to 350 cells per hour. To underscore DisCo's unique capabilities, we analyzed 31 individual intestinal organoids at varying developmental stages. This revealed extensive organoid heterogeneity, identifying distinct subtypes including a regenerative fetal-like Ly6a
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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.