Multiomic Insights with RNAscope ISH and IHC

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Why Visualize RNA and Protein Together?

Understanding the spatial relationship between RNA and protein is crucial for gaining a holistic view of cellular processes. However, analyzing these molecules separately, as has been done traditionally, misses the intricate interplay that defines tissue function and disease progression. Spatial Multiomics examines RNA and proteins in relation to tissue morphology enabling a complete understanding of gene expression regulation and protein function within specific cellular contexts.

Discover Spatial Multiomic Insights

Profiling different cell types within the brain tumor microenvironment. Simultaneous detection of a panel of 3 marker proteins (CD8a, CD68, S100β) and 3 target RNA probes (CLDN5, CXCL10, TNFα) in brain tumor tissue.

Detection of cytokines, immune and tumor cells using an RNAscope RNA-protein multiomic panel. Simultaneous detection of 3 marker proteins (CD8a, CD68, IBA-1) and 3 target RNA probes (CXCL2, IL6, and INFg) in brain TME. Nuclei were stained with DAPI.

Assess neurogenesis (progenitor stem cells) in mouse brain. Simultaneous detection of a panel of 2 Proteins (NeuN, GFAP) and 4 target RNA (Prox1, Ascl1, Calb2, Top2a) and in FFPE mouse brain hippocampal tissue. Nuclei were stained with DAPI.

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RNAscope™ Fluorescent Multiplex v2 Assay: FFPE tissue, human cervical cancer - CD3 protein (green) ifng RNA (pink), cxcl9 RNA (white)

Secreted Protein and its Origin

RNAscope Multiplex V2 assay for studying Cytotoxic T lymphocytes in cervical cancer tissue. T cells were identified using protein marker CD3 while cytokine markers IFNG and CXCL9 were detected using RNA.

Detection of cytokines, immune and tumor cells using an RNAscope RNA-protein multiomic panel of 4 marker proteins, CD4 (yellow), CD8 (white), PanCK (pink), FoxP3 (green), and 2 target RNA probes, IFNG (red), GZMB (turquoise) in human colon cancer tissue

Characterize Immune Cells in the Tumor Microenvironment

Visualizing TIL activation in Colon cancer. Using codetection to identify tumor infiltrating regulatory T cells marked by CD4+/FOXP3+ , Cytotoxic T lymphocytes seen as CD8+/ IFNG+.

Visualize Changes in Cell State

Mapping tumor associated M1/M2 macrophages marked by CD163+ / CD68+ , IL1B+ / IL10+ in cervical cancer tissue

Graphic highlighting the unlimited potential uses of RNAscope in spatial biology

Comprehensive Insights: Capture the full picture of cellular activities
Enhanced Data Quality: Achieve high-resolution, colocalized detection
Improved Research Outcomes: Uncover new therapeutic targets and disease outcomes

Unlimited Flexibility: Choose What Works For You

RNAscope™ Multiomic LS Assay

Proven class-leading single-molecule RNAscope technology is leveraged to enable simultaneous detection of up to 6 total proteins and RNA targets with single cell resolution automated on the automated assay for the Leica Biosystems BOND RX system.

Unlock Protease Free on Leica BOND RX

ACD HiPlex Pro on COMET image - melanoma

RNAscope™ HiPlex Pro for COMET™

Combining RNAscope HiPlex Pro with seqIF™ (sequential immunofluorescence) on COMET with a protease-free, fully automated workflow, same-section RNA and multiplex protein detection with the ability to select any 12 RNAscope targets, and up to 24 IF targets using off-the-shelf, non-conjugated primary antibodies.

Discover Fully Automated Multiomics

Image showing dual ISH-IHC staining in human lung cancer with human PPIB positive control mRNA probe in red, CAM5.2 acidic cytokeratin immunohistochemical staining in green with DAPI as counterstain.

Protease-free Sequential RNA-Protein Detection

Leverage the robustness of RNAscope technology by combining in situ hybridization and IHC protocol in the same sample slide leveraging the sequential workflow for both manual and automated platforms from both Leica Biosystems and Roche Tissue Diagnostics.

Learn About Manual Protease-free Workflows

Customer Success Stories

Dr Cheryl Stoddart and Dr Ekaterina
UCSF School of Medicine

The identification and anatomic location of HIV-infected cells and the effects of tissue environment on virus replication and viral gene expression are all critical for evaluating the pathogenesis of HIV infection and for developing cure strategies to eliminate HIV reservoirs. RNAscope in situ hybridization (ISH) has enabled us to visualize and quantify HIV RNA with single-copy resolution. For work supported by a Federal Contract with NIAID, NIH, we are using this state-of-the-art ISH technology in combination with immunohistochemistry to characterize the tissue and cellular compartments where the virus resides in HIV-infected humanized mice.

Webinar: Expand Your Spatial Multiomics

In this webinar you will learn more about a new service capability offered through our Professional Assay Services that enables true multiomic detection of both proteins and RNAs on the same section. This new service enables researchers to detect up to 12 protein or RNA targets in any combination.

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Characterize More with Multiomic Insights

Why Visualize RNA and Protein Together?

Discover Spatial Multiomic Insights