Multiplex PCR Primer Design With Visual OMP
Visual OMP (multiplex PCR primer assay design software) can design multiple primers and probes at the same time using a dynamic design algorithm that queries each oligo design against every other oligo in the system to check for intended and unintended cross- and mishybridization.
The size of the plex design depends on many factors such as target number, length, complexity and secondary structure, all of which further depends on the defined experimental conditions that are used.
A typical use case would involve a 20-plex of targets that are about 500 nucleotides long at standard endpoint PCR conditions. Multiplex pcr assay designs that are larger than this would require the use of OMP-Developers Edition, which is a server-based command line design and simulation application.