Question: MPprimes vs. PCRTiler for PCR Multiplexing
gravatar for rrcutler
5.6 years ago by
United States
rrcutler120 wrote:

I was trying to write a script to design primers for PCR multiplexing when I ran upon these programs that were already made for the same reason. However, my question is which seems to be the better pick? From my review, they both use primer3 to design the primers, although MPprimer uses MFEprimer to further analyze primer interactions while PCRTiler uses BlastN.


Links to multiplex PCR primer design:

target rna-seq pcr • 3.1k views
ADD COMMENTlink modified 5.6 years ago by Wubin Qu160 • written 5.6 years ago by rrcutler120

Any update to this topid?

ADD REPLYlink written 2.5 years ago by Shicheng Guo8.5k
gravatar for Wubin Qu
5.6 years ago by
Wubin Qu160
Wubin Qu160 wrote:

You can write a pipeline for design multiplex PCR primers with primer pick software (e.g. Primer3), primer specific checking program (e.g. MFEprimer) and primer secondary structure checking program (e.g. use ntthal to check  self-dimer, cross-dimer, hairpin).


I am the author of MFEprimer and MPprimer.

ADD COMMENTlink written 5.6 years ago by Wubin Qu160
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