ArticleCommunications biology2018
RollFISH achieves robust quantification of single-molecule RNA biomarkers in paraffin-embedded tumor tissue samples.
Article in Communications biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Insights Into Spatial Transcriptomics: Exploring Recent Technical Developments and Their Diverse Applications.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2026Review
- Modern RNA Quantification Methods: From RT-qPCR to Advanced Microscopy.The journal of physical chemistry. B · 2026Review
- Spatial Proofreading Amplification ofbioRxiv : the preprint server for biology · 2025Article
- Advances and applications in single-cell and spatial genomics.Science China. Life sciences · 2025Review
- Spatial Single-Cell Mapping of Transcriptional Differences Across Genetic Backgrounds in Mouse Brains.bioRxiv : the preprint server for biology · 2024Article
- Applications of single‑cell omics and spatial transcriptomics technologies in gastric cancer (Review).Oncology letters · 2024Review
- Highly sensitive spatial transcriptomics using FISHnCHIPs of multiple co-expressed genes.Nature communications · 2024Article
- Fluorescent In Situ Hybridization for the Detection of Intracellular Bacteria in Companion Animals.Veterinary sciences · 2024Review
- The dawn of spatial omics.Science (New York, N.Y.) · 2023Review
- Single-molecule RNA in situ detection in clinical FFPE tissue sections by vsmCISH.RNA (New York, N.Y.) · 2023Article
- European Society of Toxicologic Pathology (Pathology 2.0 Molecular Pathology Special Interest Group): Review of In Situ Hybridization Techniques for Drug Research and Development.Toxicologic pathology · 2023Review
- Sensitive visualization of SARS-CoV-2 RNA with CoronaFISH.Life science alliance · 2022Article
- Spatial transcriptomics technology in cancer research.Frontiers in oncology · 2022Review
- Long Non-Coding RNAs as Functional Codes for Oral Cancer: Translational Potential, Progress and Promises.International journal of molecular sciences · 2021Review
- Engineered Tools to Study Intercellular Communication.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2021Review
- Enabling high-throughput single-animal gene-expression studies with molecular and micro-scale technologies.Lab on a chip · 2020Article
- Transcriptional Spatial Profiling of Cancer Tissues in the Era of Immunotherapy: The Potential and Promise.Cancers · 2020Review
- Highly specific multiplexed RNA imaging in tissues with split-FISH.Nature methods · 2020Article
- Ultraspecific analyte detection by direct kinetic fingerprinting of single molecules.Trends in analytical chemistry : TRAC · 2020Article
- Guidelines for the Optimization and Validation of In Situ Hybridization.Methods in molecular biology (Clifton, N.J.) · 2020Article
Corrections and comments
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Authors and funding
11 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Single-molecule RNA fluorescence in situ hybridization (smFISH) represents a promising approach to quantify the expression of clinically useful biomarkers in tumor samples. However, routine application of smFISH to formalin-fixed, paraffin-embedded (FFPE) samples is challenging due to the low signal intensity and high background noise. Here we present RollFISH, a method combining the specificity of smFISH with the signal boosting of rolling circle amplification. We apply RollFISH to quantify widely used breast cancer biomarkers in cell lines and FFPE samples. Thanks to the high signal-to-noise ratio, we can visualize selected biomarkers at low magnification (20 × ) across entire tissue sections, and thus assess their spatial heterogeneity. Lastly, we apply RollFISH to quantify HER2 mRNA in 150 samples on a single tissue microarray, achieving a sensitivity and specificity of detection of HER2-positive samples of ~90%. RollFISH is a robust method for quantifying the expression and intratumor heterogeneity of biomarkers in FFPE tissues.
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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.