Use the HALO® FISH-IF module and reagents from Molecular Instruments or ACD, a Bio-techne brand, to simultaneously analyze an unlimited number of fluorescently-labeled DNA/RNA ISH probes and immunofluorescent protein biomarkers on a cell-by-cell basis. This module enables in-depth analysis of the corresponding protein and gene expression profile of every cell across the tissue, with outputs including biomarker positive cells in total and by cell compartment, probe copies and area per cell, and calculated H-scores for each probe. You can optimize image analysis with available pre-trained AI-based membrane and/or nuclear segmentation, now included with the HALO platform, and leverage interactive markups to dynamically explore colocalization and combined cell phenotypes.
Try it out! Click here to initiate your free proof-of-concept HALO image analysis.
File formats supported by the HALO image analysis platform:
- Non-proprietary (JPG, TIF, OME.TIFF)
- Nikon (ND2)
- 3D Histech (MRXS)
- Akoya (QPTIFF, component TIFF)
- Olympus / Evident (VSI)
- Hamamatsu (NDPI, NDPIS)
- Aperio (SVS, AFI)
- Zeiss (CZI)
- Leica (SCN, LIF)
- Ventana (BIF)
- Philips (iSyntax, i2Syntax)
- KFBIO (KFB, KFBF)
- DICOM (DCM*)
*whole-slide images
HCR™ Pro RNA-ISH Image Analysis Using HALO
Download our collaborative poster with Molecular Instruments to learn how membrane image analysis improved RNA-ISH quantification.
Identifying Immune Cell Phenotypes with RNAscope and HALO Image Analysis
Download our collaborative poster with ACD, a Bio-Techne Brand, on immune cell characterization using high-throughput spatial multiomics.
Quantitative Image Analysis of a Combined FISH-IF Assay
Learn how to detect protein and RNA in a single assay using ACD’s Co-Detection workflow and HALO image analysis.
Spatial Characterization of the TME with Cell DIVE Multiplexed Imaging and HALO Image Analysis
RNAscope™ and HALO® Publications
Read this publications list to see examples of research in areas from neuroscience to oncology using HALO to analyze RNAscope images.
Quantitative RNAscope™ Image Analysis Guide
From experimental design considerations to optimized setup of HALO image analysis parameters, our guide will help take your quantitative RNAscope™ image analysis to the next level.
COMET™ and RNAscope™ Image Analysis Using HALO and HALO AI
Read this collaborative app note to learn how our Pharma Services team leveraged the HALO FISH-IF and Spatial Analysis modules and HALO AI for analysis of COMET™ and RNAscope™ images.
Clearly Visualize Digital Pathology Images with View Settings Adjustments and the Figure Maker Tool
In this blog we’ll explore these platforms’ tools for view settings adjustment for fluorescent images and the integrated Figure Maker tool. Together, these features equip
Interactive Markup Images: Providing a Dynamic Look at HALO® Analysis Results
At Indica Labs, our HALO platforms are optimized for ease-of-use as well as powerful, accurate analysis, and include multiple features to help users get the
Announcing HALO® Highplex FL and FISH-IF Modules Supporting AI Membrane Segmentation
In this blog post, you can learn about the AI membrane segmentation support added to the HALO® Highplex FL and FISH-IF modules, where to find
Announcing HALO® RNAscope™ modules supporting interactive markups
In this blog post, you can learn about the interactive markup image support added to the HALO® ISH, FISH, ISH-IHC, and FISH-IF modules, where to
Getting Started with RNAscope™ Image Analysis in HALO®
28 March 2023 | Join us for this 1-hour webinar to see a live demonstration of RNAscope image analysis using the HALO® platform from Indica
Masterclass Webinar: Optimizing RNAscope Image Analysis
05 May 2022 | In this 60-min webinar, Dr. Ghislaine Lioux will present solutions to common RNAscope image analysis challenges including how to optimize color
Whole-slide Quantitative RNAscope Image Analysis: Applications and Methods
20 April 2022 | In this 2-hour event, learn from three experts in RNAscope image analysis with HALO® as they present their scientific research, share
HALO Image Analysis Masterclass Series: February-March 2021
Spring of 2021 | Indica Labs is excited to continue our HALO® Masterclass Webinar Series this winter. Each masterclass webinar will offer a deep dive
Publication Spotlight
The table below includes publications that cite the FISH-IF and ISH-IHC modules.
Your publication not on the list? Drop us an email to let us know about it!
Related HALO Modules
Acquire deeper insights into complex data sets using dimensional reduction and unsupervised clustering with interactive plotting.
Learn More
Simultaneously analyze up to three chromogenic and/or silver-labelled DNA or RNA ISH probes on a cell-by-cell basis, measuring spot numbers and area per cell and compartment, and calculated H-scores for each probe.
Learn More
Simultaneously analyze a nuclear stain and up to four IHC biomarkers or ISH probes on a cell-by-cell basis across brightfield images.
Learn MoreUse the arrows above to view additional related modules
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