Aperio RNA ISH Algorithm - Chromogenic RNA ISH Quantification

Aperio RNA ISH Algorithm

The Aperio RNA ISH algorithm provides stndardized quantitation of RNA ISH staining in digital pathology whole slide images of FFPE tissue. Automatically quantify single or dual-plex staining across whole slides, batches of slides or annotated regions of interest. Count individual molecular signals and clusters in tissue or within nuclear and/or cytoplasmic cellular compartments. Eliminate inter / intra-observer variability while providing accurate, objective results, providing consistency to your research.

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Single and Dual-Plex

With Aperio RNA ISH users can easily optimize and tune the algorithm for their specific samples. In-built flexibility means users can configure one algorithm support single-plex red, brown or green as well as dual-plex samples. Intuitive parameters enable correct classification of positive signal and elimination of false-positive or negatives.

Extensively Validated

The Aperio RNA ISH Algorithm is performance-tested against both manual and automated RNA ISH staining.


The Aperio RNA ISH Algorithm can be deployed on an individual workstation, providing an affordable solution for low volume laboratories or individual researchers. For groups with higher throughput needs, the algorithm is fully compatible with Aperio eSlide Manager, enabling rapid batch analysis and sharing of optimized algorithm configurations, results and analysis masks.

Comprehensive results

Outputting over 50 data points for each analysis, the Aperio RNA ISH Algorithm provides comprehensive data sets for researchers. Data is automatically integrated into Aperio eSlide Manager or easily exported to 3rd party data analysis programs. Analysis masks are available and are readily captured for inclusion in presentations and publications.

Key downloads

 Brochure (pdf)

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Aperio RUO (Research Use Only) Image Analysis Algorithms have been validated by Leica Biosystems for use with .svs images from Aperio AT2, Aperio CS2, and Aperio VERSA scanners. Use of Aperio RUO Algorithms with other available scanners has not been validated, and Leica Biosystems cannot train or support customers in use of Aperio RUO Algorithms with images from these scanners.