SynthesisPLoS biology2024
Meta-analysis of single-cell RNA sequencing co-expression in human neural organoids reveals their high variability in recapitulating primary tissue.
Synthesis in PLoS biology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 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
12 citing papers in PubMed.
- A consensus atlas of human brain development defines cell type-specific maturation trajectories across the lifespan.bioRxiv : the preprint server for biology · 2026Article
- RNA Coding and Transcriptional Regulation in Skin Repair: Insights from Single-Cell Profiling and Implications for Organoid-Based Regenerative Strategies.Life (Basel, Switzerland) · 2026Review
- NeMO Analytics: a compendium of transcriptomic data for the exploration of neocortical development.Nature neuroscience · 2026Article
- Cell type-agnostic transcriptomic signatures enable uniform comparisons of neural maturation.PLoS biology · 2026Article
- Article
- Modeling Alzheimer's disease with brain organoids: mechanisms, applications, and future directions.Frontiers in cell and developmental biology · 2026Review
- Review
- Predicting emergent phenotypes from single cell populations using CELLECTION.bioRxiv : the preprint server for biology · 2025Article
- The Application and Challenges of Brain Organoids in Exploring the Mechanism of Arbovirus Infection.Microorganisms · 2025Review
- Single-cell RNA sequencing reveals key signaling pathways and biological functions in giant cell tumors of bone.Discover oncology · 2025Article
- Identifying reproducible transcription regulator coexpression patterns with single cell transcriptomics.PLoS computational biology · 2025Article
- Lessons about physiological relevance learned from large-scale meta-analysis of co-expression networks in brain organoids.PLoS biology · 2024Article
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Abstract
Human neural organoids offer an exciting opportunity for studying inaccessible human-specific brain development; however, it remains unclear how precisely organoids recapitulate fetal/primary tissue biology. We characterize field-wide replicability and biological fidelity through a meta-analysis of single-cell RNA-sequencing data for first and second trimester human primary brain (2.95 million cells, 51 data sets) and neural organoids (1.59 million cells, 173 data sets). We quantify the degree primary tissue cell type marker expression and co-expression are recapitulated in organoids across 10 different protocol types. By quantifying gene-level preservation of primary tissue co-expression, we show neural organoids lie on a spectrum ranging from virtually no signal to co-expression indistinguishable from primary tissue, demonstrating a high degree of variability in biological fidelity among organoid systems. Our preserved co-expression framework provides cell type-specific measures of fidelity applicable to diverse neural organoids, offering a powerful tool for uncovering unifying axes of variation across heterogeneous neural organoid experiments.
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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.