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Question: MPprimes vs. PCRTiler for PCR Multiplexing
2
gravatar for rrcutler
5.6 years ago by
rrcutler • 120
United States
rrcutler • 120 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:

http://biocompute.bmi.ac.cn/MPprimer/

http://pcrtiler.alaingervais.org:8080/PCRTiler/index.jsp
target rna-seq pcr • 3.1k views
ADD COMMENT • link •
modified 5.6 years ago by Wubin Qu • 160 • written 5.6 years ago by rrcutler • 120
1

Any update to this topid?

ADD REPLY • link written 2.5 years ago by Shicheng Guo • 8.5k
2
gravatar for Wubin Qu
5.6 years ago by
Wubin Qu • 160
China
Wubin Qu • 160 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 COMMENT • link written 5.6 years ago by Wubin Qu • 160
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