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Simple Robust Protocols

HCR™ northern blot protocols are simple, robust, and enzyme-free, requiring only 2 stages independent of the number of target RNAs.

Automatic Background Suppression

HCR™ northern blot reagents provide automatic background suppression throughout the protocol, ensuring that even if probes or hairpins bind non-specifically in the sample they will not generate amplified background, dramatically enhancing performance and ease-of-use.

Straightforward Multiplexing

HCR™ enables straightforward multiplexing using 1-step quantitative signal amplification for all target RNAs simultaneously.

Custom Probe Design

Free custom probe design is available for any target mRNA in any organism across the tree of life.

Normal Sleep Schedule

We favor protocols with an overnight probe incubation step to enable researchers to maintain a normal sleep schedule; durations can be customized as desired.


Quantitative Band Intensities

HCR™ northern blots enable relative and absolute quantitation of RNA target abundance.

HCR™ Northern Blot Protocol

Multiplexed quantitative RNA blotting

HCR™ northern blot probe sets, amplifiers, and buffers enable multiplexed quantification of RNA target size and abundance with automatic background suppression throughout the protocol (how HCR™ northern blots work). 

HCR™ Northern Blots: Protocol Overview

Detection Stage

Amplification Stage


The same 2-stage protocol is used independent of the number of target RNAs.

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