MultiPLX: automatic grouping and evaluation of PCR primers

Lauris Kaplinski; Maido Remm

doi:10.1007/978-1-59745-528-2_14

MultiPLX: automatic grouping and evaluation of PCR primers

Methods Mol Biol. 2007:402:287-304. doi: 10.1007/978-1-59745-528-2_14.

Authors

Lauris Kaplinski¹, Maido Remm

Affiliation

¹ Department of Bioinformatics at University of Tartu, Estonia.

PMID: 17951801
DOI: 10.1007/978-1-59745-528-2_14

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/download/. Graphical Web-based interface to most functions of MultiPLX is available at http://bioinfo.ut.ee/multiplx/.

Publication types

Research Support, Non-U.S. Gov't
Review

MeSH terms

DNA Primers / chemistry*
DNA Primers / genetics
Internet*
Polymerase Chain Reaction* / methods
Sequence Analysis, DNA* / methods
Software*
User-Computer Interface*

Substances

DNA Primers