In Situ Hybridization (ISH): High-Sensitivity RNA and DNA Detection in Tissue

Overview

In situ hybridization (ISH) is a sophisticated molecular technique used to detect specific RNA or DNA sequences directly within tissue sections. By utilizing labeled nucleic acid probes, ISH service enables the visualization of gene expression or pathogen presence at the cellular level while preserving critical spatial architecture.

At iHisto, we specialize in RNA- and DNA-based ISH services on FFPE and frozen samples. By combining expert probe design, advanced signal development, and Leica BOND RX automation, we ensure superior consistency and reproducibility for every study.

How In Situ Hybridization Works

Our ISH service involves hybridizing a labeled complementary probe to a target nucleic acid sequence. Once bound, the probe is detected via chromogenic or fluorescent methods, providing high-resolution visualization of transcripts or genetic elements in their biological context.

Probe Types & Technologies Supported:

• RNA Probes: Detection of mRNA, lncRNA, and viral RNA.

• DNA Probes: Visualization of gene fusions, repeats, and CNVs.

• Advanced Platforms: We fully support RNAscope® (ACD) and HCR (Hybridization Chain Reaction) technologies for ultra-sensitive detection.

• Custom Solutions: Antisense oligonucleotide or locked nucleic acid (LNA) probes tailored to your targets.

iHisto’s Optimized ISH Services & Workflow

We provide a streamlined, automated laboratory framework for your in situ hybridization needs:

• Automated Excellence: Full integration with the Leica BOND RX system for high-throughput, consistent hybridization and detection.

• Detection Modes:
  CISH (Chromogenic ISH): Enzyme-based colorimetric readout for brightfield microscopy.
  FISH (Fluorescent ISH): High-resolution or multiplexed fluorescent detection.
  TSA-Amplified ISH: Optimized for ultra-low expression targets.

• Digital Pathology: Pathologist-reviewed results and high-resolution digital image delivery included.

Applications of In Situ Hybridization Services

ISH service is essential for localizing and quantifying genomic markers where traditional IHC may fall short:

• Gene Expression Profiling: Spatial mapping of cytokines, oncogenes, and rare transcripts.

• Infectious Disease: Detection of viral RNA (e.g., SARS-CoV-2, HPV, CMV) and microbial localization (16S/18S rRNA).

• Genomic Analysis: Visualizing chromosomal translocations, fusions, or copy number variations.

• Cell-Type Mapping: Identifying specific cell populations via unique RNA transcripts.

Why Choose iHisto for ISH Staining?

• Industry-Standard Kits: Expert implementation of ACD RNAscope® and HCR workflows.

• Automation: Automated protocols reduce manual variability and accelerate turnaround times.

• Versatility: Compatible with human, rodent (mouse/rat), NHP, and xenograft tissues.

• Multiplex Capability: Ability to combine ISH and IHC (dual-staining) to localize gene expression alongside protein markers.

Frequently Asked Questions (FAQs)

Q: What is the primary advantage of an ISH service over an IHC service? 

A: ISH detects nucleic acids (RNA/DNA), whereas IHC detects proteins. ISH service is ideal when specific gene expression data is required or when high-quality antibodies for a target protein are unavailable.

Q: Can you perform RNAscope® as part of your ISH service? 

A: Yes. We offer both chromogenic (CISH) and fluorescent (FISH) detection using RNAscope® technology on our automated Leica platforms.

Q: Is it possible to combine ISH with immunofluorescence (IF)? 

A: Absolutely. We can perform dual ISH-IF or ISH-IHC protocols to provide a comprehensive multi-omic view of your tissue samples.

Ready to Detect RNA or DNA in Tissue with Precision?

At iHisto, our in situ hybridization services bring unmatched precision and spatial context to molecular detection. Whether you are studying viral infections, rare gene transcripts, or complex oncogenic fusions, our ISH service provides the clear results needed to advance your research.

📩 Contact us today to request a quote or consultation for your in situ hybridization needs.