ArticleNature protocols2013
Stochastic profiling of transcriptional regulatory heterogeneities in tissues, tumors and cultured cells.
Article in Nature protocols, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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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
21 citing papers in PubMed.
- Dichotomous ovarian cancer-initiating potential of Pax8+ cells revealed by a mouse genetic mosaic model.iScience · 2023Article
- Nucleocytoplasmic transport of active HER2 causes fractional escape from the DCIS-like state.Nature communications · 2023Article
- Fragmentation of Small-Cell Lung Cancer Regulatory States in Heterotypic Microenvironments.Cancer research · 2021Article
- Premalignant Oligodendrocyte Precursor Cells Stall in a Heterogeneous State of Replication Stress Prior to Gliomagenesis.Cancer research · 2021Article
- Pan-Cancer Drivers Are Recurrent Transcriptional Regulatory Heterogeneities in Early-Stage Luminal Breast Cancer.Cancer research · 2021Article
- The receptor tyrosine kinase Ror is required for dendrite regeneration in Drosophila neurons.PLoS biology · 2020Article
- Article
- In situ 10-cell RNA sequencing in tissue and tumor biopsy samples.Scientific reports · 2019Article
- Lessons from single-cell transcriptome analysis of oxygen-sensing cells.Cell and tissue research · 2018Review
- Tumor-Suppressor Inactivation of GDF11 Occurs by Precursor Sequestration in Triple-Negative Breast Cancer.Developmental cell · 2017Article
- Review
- Modeling heterogeneity in the pluripotent state: A promising strategy for improving the efficiency and fidelity of stem cell differentiation.BioEssays : news and reviews in molecular, cellular and developmental biology · 2016Review
- Exploiting Single-Cell Quantitative Data to Map Genetic Variants Having Probabilistic Effects.PLoS genetics · 2016Article
- Robust Inference of Cell-to-Cell Expression Variations from Single- and K-Cell Profiling.PLoS computational biology · 2016Article
- Single-cell states versus single-cell atlases - two classes of heterogeneity that differ in meaning and method.Current opinion in biotechnology · 2016Review
- An analysis of critical factors for quantitative immunoblotting.Science signaling · 2015Article
- Single-cell RNA-seq: advances and future challenges.Nucleic acids research · 2014Review
- Cell-to-cell variability in cell death: can systems biology help us make sense of it all?Cell death & disease · 2014Review
- A time- and matrix-dependent TGFBR3-JUND-KRT5 regulatory circuit in single breast epithelial cells and basal-like premalignancies.Nature cell biology · 2014Article
- Parameterizing cell-to-cell regulatory heterogeneities via stochastic transcriptional profiles.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
Corrections and comments
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Authors and funding
2 authors.
Funding
Abstract
Single-cell variations in gene and protein expression are important during development and disease. Such cell-to-cell heterogeneities can be directly inspected one cell at a time, but global methods are usually not sensitive enough to work with the starting material of a single cell. Here we provide a detailed protocol for stochastic profiling, a method that infers single-cell regulatory heterogeneities by repeatedly sampling small collections of cells selected at random. Repeated stochastic sampling is performed by laser-capture microdissection or limiting dilution, followed by careful exponential cDNA amplification, hybridization to microarrays and statistical analysis. Stochastic profiling surveys the transcriptome for programs that are heterogeneously regulated among cellular subpopulations in their native tissue context. The protocol is readily optimized for specific biological applications and takes about 1 week to complete.
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Registered trials
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