RNAscope™, BaseScope™ and miRNAscope™Assays
The RNAscope™, BaseScope™, and miRNAscope™ 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 7 Z pairs can be used to obtain a signal with single cell resolution. With over 8000 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 was added to the RNAscope Technology product portfolio 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 1-3 Z pairs. This powerful in situ hybridization technology enables the specific detection of exon junctions, short target/splice variants highly homologous sequences and point mutations, with single cell detection sensitivity in a broad range of tissues, samples and species.
miRNAscope™ Assay
The miRNAscope Assay uses an advanced innovative in situ hybridization technology and proprietary probe design to enable highly specific and sensitive detection of small RNAs including antisense oligonucleotides (ASOs), microRNAs (miRNAs), and small interfering RNAS (siRNAs), with single cell resolution providing spatial and morphological context.
RNAscope, BaseScope, and miRNAscope Assay Comparison
| RNAscope Assay | BaseScope Assay | miRNAscope Assay | |
|---|---|---|---|
| Number of ZZ Pair per target | Standard probe design is 20 ZZ probes (minimum of 7 ZZ probes) | 1 to 3 ZZ probes based on the application | N/A |
| Target | mRNA >300 bases lncRNA > 300 bases | Exon junctions/Splice Variants RNA 50 to 300 bases Validated point mutations | Small RNAs 17-50 bases ASOs, miRNAs, siRNAs |
| Application | lcnRNA and mRNA >300 bases | Exon junctions/splice variants, circular RNA, gene fusion, gene knockout Short/highly homologous sequences, TCRs and CDR sequence for T cell clones, pre-miRNA, gene editing/CRISPR, CAR-T cell validation and detection Point mutation, short InDel, homologues | Small RNAs 17-50 bases ASOs, miRNAs, piRNAs, shRNAs, siRNAs, and tRNAs |
| Multiplex capability | Single to up to 12-plex | Single to Duplex | Single-plex |
| Detection | Chromogenic or fluorescent | Chromogenic | Chromogenic |
| Sample type | FFPE cells & tissues (TMAs) Fresh frozen tissues Fixed frozen tissues Cultured cells | FFPE cells & tissues (TMAs) Fresh frozen tissues Fixed frozen tissues Cultured cells | FFPE cells & tissues (TMAs) Fresh frozen tissues Fixed frozen tissues Cultured cells |
| Pretreatment kit | Reagent Kit includes Universal Pretreatment Kit | Reagent kit includes Universal Pretreatment Kit | Reagent kit includes Universal Pretreatment Kit |
| Kit | RNAscope kit* | BaseScope kit* | miRNAscope kit* |
| Probe | RNAscope probe* | BaseScope probe* | miRNAscope probe* |
| Automation | Available on Leica Bond Rx and Roche Discovery ULTRA | Single-plex available on Leica Bond Rx and Roche Discovery ULTRA | Available on Leica Bond Rx |
*RNAscope, BaseScope, and miRNAscope Assay products components cannot be interchanged.
