ArticleeLife2020
A new protocol for single-cell RNA-seq reveals stochastic gene expression during lag phase in budding yeast.
Article in eLife, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- Strategies and applications for alleviating carbon catabolite repression.Synthetic and systems biotechnology · 2027Review
- GLM-Prior: a genomic language model for transferable sequence-derived priors in gene regulatory network inference.Nature communications · 2026Article
- Physiological architecture and evolutionary origins of cellular adaptability.bioRxiv : the preprint server for biology · 2026Article
- Relationships between gene expression variability, expression levels, and Protein-Protein interactions in mouse and yeast.PloS one · 2026Article
- Applications of single-cell RNA sequencing in fungal infections.Frontiers in microbiology · 2026Review
- Intergenic accumulation of RNA polymerase II maintains the potential for swift transcriptional restart upon release from quiescence.Genome research · 2025Article
- Review
- Refining the resolution of the yeast genotype-phenotype map using single-cell RNA-sequencing.eLife · 2025Article
- Article
- Single-cell eQTL mapping in yeast reveals a tradeoff between growth and reproduction.bioRxiv : the preprint server for biology · 2024Article
- An approach to analyze spatiotemporal patterns of gene expression at single-cell resolution inmSphere · 2024Article
- Phenotypic heterogeneity follows a growth-viability tradeoff in response to amino acid identity.Nature communications · 2024Article
- PMF-GRN: a variational inference approach to single-cell gene regulatory network inference using probabilistic matrix factorization.Genome biology · 2024Article
- An ultra high-throughput, massively multiplexable, single-cell RNA-seq platform in yeasts.Yeast (Chichester, England) · 2024Article
- Structure-primed embedding on the transcription factor manifold enables transparent model architectures for gene regulatory network and latent activity inference.Genome biology · 2024Article
- Cross-feeding promotes heterogeneity within yeast cell populations.Nature communications · 2024Article
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- Article
- RespectM revealed metabolic heterogeneity powers deep learning for reshaping the DBTL cycle.iScience · 2023Article
- Loss of Flot2 expression in deep cerebellar nuclei neurons of mice with Niemann-Pick disease type C.Heliyon · 2023Article
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Authors and funding
9 authors.
Funding
Abstract
Current methods for single-cell RNA sequencing (scRNA-seq) of yeast cells do not match the throughput and relative simplicity of the state-of-the-art techniques that are available for mammalian cells. In this study, we report how 10x Genomics' droplet-based single-cell RNA sequencing technology can be modified to allow analysis of yeast cells. The protocol, which is based on in-droplet spheroplasting of the cells, yields an order-of-magnitude higher throughput in comparison to existing methods. After extensive validation of the method, we demonstrate its use by studying the dynamics of the response of isogenic yeast populations to a shift in carbon source, revealing the heterogeneity and underlying molecular processes during this shift. The method we describe opens new avenues for studies focusing on yeast cells, as well as other cells with a degradable cell wall.
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