Multiplexed Single-Cell in situ RNA Profiling

Yu Sheng Wang, Jia Guo

Research output: Contribution to journalReview articlepeer-review

6 Scopus citations


The ability to quantify a large number of varied transcripts in single cells in their native spatial context is crucial to accelerate our understanding of health and disease. Bulk cell RNA analysis masks the heterogeneity in the cell population, while the conventional RNA imaging approaches suffer from low multiplexing capacity. Recent advances in multiplexed fluorescence in situ hybridization (FISH) methods enable comprehensive RNA profiling in individual cells in situ. These technologies will have wide applications in many biological and biomedical fields, including cell type classification, signaling network analysis, tissue architecture, disease diagnosis and patient stratification, etc. In this minireview, we will present the recent technological advances of multiplexed single-cell in situ RNA profiling assays, discuss their advantages and limitations, describe their biological applications, highlight the current challenges, and propose potential solutions.

Original languageEnglish (US)
Article number775410
JournalFrontiers in Molecular Biosciences
StatePublished - Nov 11 2021


  • fish
  • fluorescence in situ hybridization
  • genomics
  • transcriptomics
  • transcripts

ASJC Scopus subject areas

  • Biochemistry
  • Biochemistry, Genetics and Molecular Biology (miscellaneous)
  • Molecular Biology


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