MPprimes vs. PCRTiler for PCR Multiplexing
1
2
Entering edit mode
5.9 years ago
rrcutler ▴ 120

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

RNA-Seq PCR Target • 3.2k views
ADD COMMENT
1
Entering edit mode

Any update to this topid?

ADD REPLY
2
Entering edit mode
5.8 years ago
Wubin Qu ▴ 160

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

Login before adding your answer.

Traffic: 1980 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6