Abstract
In this chapter we describe MultiPLX—a tool for automatic grouping of PCR primers for multiplexed PCR. Both generic working principle and step-by-step practical procedures with examples are presented.
MultiPLX performs grouping by calculating many important interaction levels between the different primer pairs and then distributes primer pairs to groups so that the strength of unwanted interactions is kept below user-defined compatibility level. In addition it can be used to select optimal primer pairs for multiplexing from list of candidates.
MultiPLX can be downloaded from http://bioinfo.ut.ee/?page_id=167. Graphical web-based interface to most functions of MultiPLX is available at http://bioinfo.ut.ee/multiplx/.
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Acknowledgements
This work was supported by the grant EU19730 from Enterprise Estonia. Development of primer design software in our group has been funded by Centre of Excellence in Genomics at Estonian Biocentre (EU European Regional Development Fund). The authors thank Katre Palm for a valuable help with English grammar.
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Kaplinski, L., Remm, M. (2015). MultiPLX: Automatic Grouping and Evaluation of PCR Primers. In: Basu, C. (eds) PCR Primer Design. Methods in Molecular Biology, vol 1275. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2365-6_9
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DOI: https://doi.org/10.1007/978-1-4939-2365-6_9
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