June 23, 2015 Liz Amdahl

Multiplex RNA FISH

Product Overview

Indica Labs’ Multiplex RNA FISH module is one of  several Insitu applications in what’s recognized as the industry’s most comprehensive ISH analytics platform.  This particular module reads multi-channel fluorescent images and measures up to four RNA ISH probes on a cell-by-cell basis allowing the user to generate thousands of single-cell RNA expression profiles in seconds. This analysis software is intended for use with most multiplex RNA FISH assays including RNAScope™ provided by Advanced Cell Diagnostics.In the example above the software measures a three-plexed RNAScope assay on brain tissue. Each cell is identified by nuclear detection on the DAPI channel, and the multiplexed probes are measured within the cell boundaries. The software reports the average expression rates for each probe across the entire region of analysis as well as the individual expression profiles for each cell.

The Multiplex RNA FISH quantification tool works with most microscope images and integrates seamlessly into the  HALO™ platform which is compatible with a number of third party systems and file formats.

Contact info@indicalab.com for product demonstration and pricing information or upload some images for a free trial.

Supported File Formats:


  • – Non Proprietary (JPG, TIF)
  • – 3D Histech (MRXS)
  • – Aperio (SVS, AFI, eSlideManager)
  • – Hamamatsu (NDPI, NDPIS)
  • – Leica (SVS, SCN, LIF)
  • – Mikroscan (TIF)
  • – Nikon (ND2)
  • – Olympus (VSI)
  • – Perkin Elmer (QPTIFF, Vectra TIF)
  • – Philips IMS
  • – Zeiss (CZI)

Don’t see the format you’re looking for? Contact us to make a request

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