Multiplex Manager 1.0: a cross-platform computer program that plans and optimizes multiplex PCR

Clare Holleley, Paul Geerts

Research output: Contribution to journalArticle

205 Citations (Scopus)

Abstract

Multiplex Manager 1.0 is a user-friendly cross-platform program that designs efficient combinations of existing genetic marker loci into multiplex polymerase chain reactions and optimizes using prior marker information. The program has the flexibility to solve two design problems: combining all markers into the smallest number of reactions, or alternatively, selecting a subset from many available markers to design an efficient and robust multiplex. Our program minimizes the number of reactions, the genetic linkage, and the difference in annealing temperature. At the same time it maximizes the spacing between markers, the heterozygosity, and the number of alleles. The final output provides easily interpreted and informative graphical representations of reactions, as well as the option of manually editing final reactions. Multiplex Manager 1.0 is freely available at www.multiplexmanager.com.
Original languageEnglish
Pages (from-to)511-517
Number of pages7
JournalBioTechniques
Volume46
DOIs
Publication statusPublished - 2009
Externally publishedYes

Fingerprint

Genetic Linkage
Genetic Loci
Multiplex Polymerase Chain Reaction
Genetic Markers
Computer program listings
Managers
Software
Alleles
Temperature
Polymerase chain reaction
Annealing

Cite this

@article{a57816f32bbe4c70a2d36fb22c19db7d,
title = "Multiplex Manager 1.0: a cross-platform computer program that plans and optimizes multiplex PCR",
abstract = "Multiplex Manager 1.0 is a user-friendly cross-platform program that designs efficient combinations of existing genetic marker loci into multiplex polymerase chain reactions and optimizes using prior marker information. The program has the flexibility to solve two design problems: combining all markers into the smallest number of reactions, or alternatively, selecting a subset from many available markers to design an efficient and robust multiplex. Our program minimizes the number of reactions, the genetic linkage, and the difference in annealing temperature. At the same time it maximizes the spacing between markers, the heterozygosity, and the number of alleles. The final output provides easily interpreted and informative graphical representations of reactions, as well as the option of manually editing final reactions. Multiplex Manager 1.0 is freely available at www.multiplexmanager.com.",
keywords = "multiplex PCR, polymerase chain reaction, multiplexing",
author = "Clare Holleley and Paul Geerts",
year = "2009",
doi = "10.2144/000113156",
language = "English",
volume = "46",
pages = "511--517",
journal = "BioTechniques",
issn = "0736-6205",
publisher = "Eaton Publishing Company",

}

Multiplex Manager 1.0: a cross-platform computer program that plans and optimizes multiplex PCR. / Holleley, Clare; Geerts, Paul.

In: BioTechniques, Vol. 46, 2009, p. 511-517.

Research output: Contribution to journalArticle

TY - JOUR

T1 - Multiplex Manager 1.0: a cross-platform computer program that plans and optimizes multiplex PCR

AU - Holleley, Clare

AU - Geerts, Paul

PY - 2009

Y1 - 2009

N2 - Multiplex Manager 1.0 is a user-friendly cross-platform program that designs efficient combinations of existing genetic marker loci into multiplex polymerase chain reactions and optimizes using prior marker information. The program has the flexibility to solve two design problems: combining all markers into the smallest number of reactions, or alternatively, selecting a subset from many available markers to design an efficient and robust multiplex. Our program minimizes the number of reactions, the genetic linkage, and the difference in annealing temperature. At the same time it maximizes the spacing between markers, the heterozygosity, and the number of alleles. The final output provides easily interpreted and informative graphical representations of reactions, as well as the option of manually editing final reactions. Multiplex Manager 1.0 is freely available at www.multiplexmanager.com.

AB - Multiplex Manager 1.0 is a user-friendly cross-platform program that designs efficient combinations of existing genetic marker loci into multiplex polymerase chain reactions and optimizes using prior marker information. The program has the flexibility to solve two design problems: combining all markers into the smallest number of reactions, or alternatively, selecting a subset from many available markers to design an efficient and robust multiplex. Our program minimizes the number of reactions, the genetic linkage, and the difference in annealing temperature. At the same time it maximizes the spacing between markers, the heterozygosity, and the number of alleles. The final output provides easily interpreted and informative graphical representations of reactions, as well as the option of manually editing final reactions. Multiplex Manager 1.0 is freely available at www.multiplexmanager.com.

KW - multiplex PCR

KW - polymerase chain reaction

KW - multiplexing

U2 - 10.2144/000113156

DO - 10.2144/000113156

M3 - Article

VL - 46

SP - 511

EP - 517

JO - BioTechniques

JF - BioTechniques

SN - 0736-6205

ER -