Cookies on this website

We use cookies to ensure that we give you the best experience on our website. If you click 'Accept all cookies' we'll assume that you are happy to receive all cookies and you won't see this message again. If you click 'Reject all non-essential cookies' only necessary cookies providing core functionality such as security, network management, and accessibility will be enabled. Click 'Find out more' for information on how to change your cookie settings.

Visualise RNA biomarkers with chromogenic or fluorescent detection using RNAscope

Example of RNAScope - CRC Tissue


RNAscope® is a sensitive RNA in situ hybridisation (ISH) approach for the chromogenic and fluorescent detection of RNA biomarkers.

“RNAscope® employs a unique signal amplification strategy that allows for the visualisation of target RNAs as punctate dots, where each dot represents an individual RNA molecule. The key benefits of the RNAscope® technology are high sensitivity due to its signal amplification strategy, high specificity as a result of the RNAscope® probe design minimising nonspecific off-target signals, and detection and quantification of RNA with spatial and morphological context” (Anderson et al, 2016).

We perform RNAscope® ISH on the automated Leica BOND-RXplatform which allows high throughput and reliability.  We have successfully coupled chromogenic RNAscope® ISH with protein analysis via IHC in formalin-fixed paraffin embedded (FFPE) tissue sections.  This allows the cellular localisation of single transcripts, and the identification of specific cell populations and/or cells expressing certain proteins.

We are looking forward to developing this work further by working with collaborators on new projects.

RNA Scope


What do I need to consider if providing samples/tissue as FFPE blocks or slides? 

  • Old tissue is often poorer quality than newer tissue. We recommend re-embedding in fresh wax prior to use.
  • Tissue is better preserved in the block than on the slide, for example, historically cut slides often give poorer staining. We recommend sectioning close to the staining date.
  • Optimal formalin fixation results in better IHC or multiplex staining.
  • There should only be one tissue section per slide.
  • Place tissue as centrally as possible on the slide.
  • If intending to overlay images for analysis, tissue placement and orientation must be as similar as possible across each slide.
  • Thick tissue sections give poorer quality staining. 5-micron sections are recommended.

Please see the FAQ ‘What factors affect the quality and consistency of multiplexed images?’ for further multiplex related considerations.