iMEC: Online Marker Efficiency Calculator

被引：133

作者：

Amiryousefi, Ali ^{[1
,2
]}

Hyvonen, Jaakko ^{[1
,2
]}

Poczai, Peter ^{[2
]}

机构：

[1] Univ Helsinki, Viikki Plant Sci Ctr, Fac Biol & Environm Sci, Organismal Evolutionary Biol Res Program, POB 65, FI-00014 Helsinki, Finland

[2] Univ Helsinki, Finnish Museum Nat Hist, Bot Unit, POB 7, FI-00014 Helsinki, Finland

来源：

APPLICATIONS IN PLANT SCIENCES | 2018年 / 6卷 / 06期

关键词：

arbitrarily amplified dominant markers (AADs); DNA band; molecular marker; multi-locus fingerprinting; polymorphism; MOLECULAR MARKERS; IDENTIFICATION; POLYMORPHISM;

D O I：

10.1002/aps3.1159

中图分类号：

Q94 [植物学];

学科分类号：

071001 ;

摘要：

PREMISE OF THE STUDY: To accurately design plant genetic studies, the information content of utilized markers and primers must be calculated. Plant genotyping studies should take into account the efficiency of each marker system by calculating different parameters to find the optimal combination of primers. This can be problematic because there are currently no easily accessible applications that can be used to calculate multiple indices together. METHODS AND RESULTS: The program Online Marker Efficiency Calculator (iMEC) was developed using R for the simple computation of seven polymorphism indices (heterozygosity index, polymorphism information content, discriminating power, effective multiplex ratio, marker index, arithmetic mean heterozygosity, and resolving power). These indices are based on dominant and codominant DNA fingerprinting markers, thus allowing comparison and selection of optimal genetic markers for a given data set. CONCLUSIONS: iMEC simplifies the calculation of diverse indices for the marker of choice to better enable researchers to measure polymorphism information for individual markers.

引用

页数：4

共 20 条

[1]

[Anonymous], 2001, NDE NEXUS DATA EDITO

[2]

BOTSTEIN D, 1980, AM J HUM GENET, V32, P314

[3] A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species [J].