Multiplex PCR primer designing - (Aug/17/2004 )
can any one suggest me that how can i designed primers for multiplex PCR and theoratically how can i check that these primer will work or not ??????
is any software available ???
This topic has been discussed in several threads
For design tools, this may help
I would like to suggest you to use Primer Premier software from PREMIER Biosoft International . To check for a number of primers in a reaction i.e., for a multiplex/nested PCR, you can analyze as many primers as you want, using Multiplex/Nested function.
The following site has a primer design tool for multiplex PCR. It is kind of slow, you would need to limit to a few pairs of primers and not too long PCR products:
I agree with synthia's suggestion, Primer Premier is a good software and one can download it from http://www.premierbiosoft.com/primerdesign/index.html
for free and request for a time limited key, this compnay also has a molecular beacon software, Beacon Designer which is also very interesting, http://www.premierbiosoft.com/molecular_beacons/index.html