Multiplexed, quantitative, sensitive, versatile, robust. Learn more

Multiplexed quantitative in situ hybridization in a whole-mount chicken embryo using in situ HCR v3.0 with automatic background suppression throughout the protocol

✓  Simple

✓  Amplified

✓  Multiplexed

✓  Quantitative

✓  Penetrating 

✓  Resolved

✓  Sensitive

✓  Portable

✓  Versatile

✓  Compatible

✓  Robust

2-stage enzyme-free protocol 

Signal elevated above autofluorescence 

Simultaneous 1-step amplification for up to 5 target RNAs

Signal scales linearly with target abundance

Whole-mount vertebrate embryos and thick tissue sections

Subcellular or single-molecule resolution as desired

Single molecules detected in thick autofluorescent samples

Suitable for use with diverse targets in diverse organisms

Multiple assay formats: RNA-FISH, RNA flow cytometry, northern blots

Combine with tissue clearing as desired  

Automatic background suppression throughout the protocol

Quantitative RNA Analysis Modes with Automatic Background Suppression

HCR v3.0 probe sets, amplifiers, and buffers enable multiplexed quantitative RNA fluorescence in situ hybridization (RNA-FISH), RNA flow cytometry, and northern blotting with automatic background suppression throughout the protocol, dramatically enhancing performance and ease-of-use. Learn more

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qHCR Imaging

Analog RNA relative quantitation with subcellular resolution in the anatomical context of thick autofluorescent samples. Learn more 

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dHCR Imaging

Digital RNA absolute quantitation with single-molecule resolution in the anatomical context of thick autofluorescent samples. Learn more 

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qHCR Flow Cytometry

Analog RNA relative quantitation for high-throughput expression profiling of mammalian and bacterial cells. Learn more 

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qHCR Northern Blots

Simultaneous quantification of RNA target size and abundance. Learn more

Any mRNA in Any Organism

Signal amplification based on the mechanism of hybridization chain reaction (HCR) leads to simple, robust, enzyme-free protocols offering the versatility to image any mRNA in any organism. Learn more

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