I need to design primers for hybridization chain reaction for signal amplification (in-vitro). Anybody know a software/company that does this?

28 August 2020 1 1K Report

Hybridization chain reaction (HCR), a form of non-enzymatic method for amplification of target nucleic acids. I need to design the two HCR primers. Is there any special software for doing that?

Walid Hassene Hamri

I would suggest you be sure first that your primers amplify only your targeted gene. Taking into consideration this information (Length of 18-24 bases, 40-60% G/C content, start and end with 1-2 G/C pairs, melting temperature (Tm) of 50-60°C, primer pairs should have a Tm within 5°C of each other, primer pairs should not have complementary regions) . at the time this has been done, I would use the amplicon as a probe, not only one of the primers. Your probe will therefore be bigger and the fluorescence intensity too for FISH.

Hope this may help you

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