RNAscope® and BaseScope™ Assays Overview

The RNAscope® and BaseScope™ Assays are based on the proprietary RNAscope® Technology, enabling RNA target expression analysis within intact cells and tissues with high sensitivity and specificity.

 

RNAscope® Assay
The innovative RNAscope® Assay, with in situ hybridization technology to detect mRNA and ncRNA targets of >300bp, was launched in 2011 and marks the foundation of our product portfolio.  The proprietary probe design requires an average of 20 Z pairs per target, however a minimum hybridization of 6 Z pairs can be used to obtain a signal. With over 800 publications in peer-reviewed journals, across multiple disciplines, the RNAscope® Assay represents a revolutionary advance in in situ target RNA detection.

 

BaseScope™ Assay
The BaseScope™ Assay is a recent addition to the RNAscope® Technology product portfolio, launched in early 2016.  Using the same innovative technology and proprietary probe design as used in the RNAscope Assay, the BaseScope™ Assay is further refined to detect as few as 1-4 Z pairs. This powerful in situ hybridization technology enables the specific detection of mutations, exon junctions, short target sequences and highly homologous sequences, with single molecule detection sensitivity in a broad range of tissues, samples and species.

 

RNAscope® and BaseScope™ Assay Comparison

 RNAscope® AssayBaseScope™ Assay
Number of ZZ Pair per targetStandard probe design is 20 ZZ probes (minimum of 6 ZZ probes)1 to 6 ZZ probes based on the application
TargetmRNA >300 bases
lncRNA > 300 bases
RNA 50 to 300 bases
Exon junction
Point mutation
ApplicationlncRNA and mRNA >300 basesShort RNA, splice variants, circular RNA, CAR-T cell validation and detection, highly homologous sequences, CDR sequence for T cell receptor (TCR), snoRNA, pre-miRNA, gene therapy, point mutations, short indels
Multiplex capabilityUp to 4-plexSingle-plex
DetectionChromogenic or fluorescentChromogenic FastRED
Sample typeFFPE cells & tissues (TMAs)
Fixed frozen tissues
Fresh frozen tissues
Cultured cells
FFPE cells & tissues (TMAs)
Fresh frozen tissues
Pretreatment kitOptimized for FFPE, Universal Pretreatment kit available separatelyReagent kit includes Universal Pretreatment Kit
KitRNAscope® kit*BaseScope™ kit*
ProbeRNAscope® probe*BaseScope™ probe*
AutomationAvailable on Leica Bond Rx and Ventana Discovery ULTRA and XTTBD

 

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