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 1,400 publications in peer-reviewed journals, across multiple disciplines, the RNAscope® Assay represents a revolutionary advance in in situ target RNA detection.
Read more


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.
Read more


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


Contact Us

Complete one of the two forms below and we will get back to you.

Advanced Cell Diagnostics

Our new headquarters office starting May 2016:

7707 Gateway Blvd.  
Newark, CA 94560
Toll Free: 1 (877) 576-3636
Phone: (510) 576-8800
Fax: (510) 576-8798



19 Barton Lane  
Abingdon Science Park
OX14 3NB
United Kingdom
Phone 2: +44 1235 529449
Fax: +44 1235 533420



Advanced Cell Diagnostics China

Building 15, No. 26 Xihuan South Road
Beijing Economic-Technological Development Area
Beijing, China, Zip code: 100176

For general information: Leon.Li@bio-techne.com
Web: www.acdbio.com/cn

For general information: Info.ACD@bio-techne.com
For place an order: order.ACD@bio-techne.com
For product support: support.ACD@bio-techne.com
For career opportunities: hr.ACD@bio-techne.com