iMEC: Online Marker Efficiency Calculator

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Amiryousefi , A , Hyvönen , J & Poczai , P 2018 , ' iMEC: Online Marker Efficiency Calculator ' , Applications in Plant Sciences , vol. 6 , no. 6 , 1159 .

Title: iMEC: Online Marker Efficiency Calculator
Author: Amiryousefi, Ali; Hyvönen, Jaakko; Poczai, Péter
Contributor organization: Bioinformatics for Molecular Biology and Genomics (BMBG)
Viikki Plant Science Centre (ViPS)
Finnish Museum of Natural History
Plant Biology
Date: 2018-06
Language: eng
Number of pages: 4
Belongs to series: Applications in Plant Sciences
ISSN: 2168-0450
Abstract: 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.
Subject: 1181 Ecology, evolutionary biology
arbitrarily amplified dominant markers (AAD s)
DNA band
molecular marker
multi-locus fingerprinting
112 Statistics and probability
113 Computer and information sciences
Peer reviewed: Yes
Rights: cc_by_nc_sa
Usage restriction: openAccess
Self-archived version: publishedVersion

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