PowerMarker: an integrated analysis environment for genetic marker analysis

By Kejun Liu, Spencer V. Muse. Bioinform., 2005

4,309 citations recorded by the source corpus.

View Paper: https://www.semanticscholar.org/paper/c5da1106929752414ca6d110f9ceb4500662cb9b

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In Genetics

In Molecular Biology

Citations in the corpus

Molecular diversity and genome-wide linkage disequilibrium patterns in a worldwide collection of Oryza sativa and its wild relatives (2008, methodology): “PowerMarker software (Liu and Muse 2005) was used to calculate gene diversity, allele frequencies and PIC values (Botstein et al. 1980) for each SSR marker.”
Characterization of a global germplasm collection and its potential utilization for analysis of complex quantitative traits in maize (2011, methodology): “The Nei’s genetic distance (Nei 1972) among individuals was then used to construct a neighbor-joining (NJ) phylogenetic tree with 1000 runs of bootstrapping using Powermarker version 3.25 (Liu and Muse 2005).”
Population Structure and Diversity in Finger Millet (Eleusine coracana) Germplasm (2008, positive): “Diversity Analyses Summary statistics, including the number of alleles, the frequency of the major allele and the gene diversity (expected heterozygosity) for all Eleusine lines, for E. coracana subsp. coracana, for subsp. africana and for the African and Asian subpopulations within subsp. coracana ”
A Rice Diversity Panel Evaluated for Genetic and Agro‐Morphological Diversity between Subpopulations and its Geographic Distribution (2011, neutral): “25 software (Liu and Muse, 2005).”
Variation in melon (Cucumis melo) landraces adapted to the humid tropics of southern India (2011, methodology): “Number of alleles, allele frequencies, polymorphism information content (PIC), Nei et al. (1983) genetic distances and NeighbourJoining (NJ) tree were calculated with Powermarker (Liu and Muse 2005), NJ tree was plotted with MEGA 3.0 (Tamura et al. 2007).”
Development of new microsatellite markers and their application in the analysis of genetic diversity in lentils (2009, neutral): “25 (Liu and Muse 2005).”
EST-derived SSR markers in Jatropha curcas L.: development, characterization, polymorphism, and transferability across the species/genera (2011, neutral): “25 (Liu and Muse 2005) as in Botstein et al. (1980).”
Sweet Sorghum Genetic Diversity and Association Mapping for Brix and Height (2009, methodology): “0 (Liu and Muse, 2005) was used to evaluate FST (Wright, 1965) and create genetic distance matrices (Nei, 1972).”
Evaluation of Genetic Diversity and Genome‐wide Linkage Disequilibrium among U.S. Wheat (Triticum aestivum L.) Germplasm Representing Different Market Classes (2007, methodology): “…as the probability that two randomly chosen alleles from the population are diff erent (Weir, 1996); polymorphism information content (PIC) values, defi ned by Bot-stein et al. (1980); and total number of alleles at each SSR locus were calculated using the PowerMarker software (Liu and Muse, 2005).”
Molecular Characterization of Maize Inbreds with Expired U.S. Plant Variety Protection (2008, methodology): “PowerMarker (Liu and Muse, 2005) was used to eliminate markers with >25% missing data or >10% heterozygous allele calls.”
Association Mapping for Grain Quality in a Diverse Sorghum Collection (2012, methodology): “25 (Liu and Muse, 2005) was used to calculate Chord distance (Cavalli-Sforza and Edwards, 1967) among accessions.”
Assessment of the genetic diversity in cowpea (Vigna unguiculata L. Walp.) germplasm from Ghana using simple sequence repeat markers (2010, methodology): “net) (Liu and Muse, 2005) was employed to carry out cluster analysis and construct dendrogram from the SSR data for 142 accessions of cowpea involving the unweighted pair group method with arithmetic mean based on Nei’s genetic distances (Nei and Li, 1979).”
Single Nucleotide Polymorphism–based Genetic Diversity in the Reference Set of Peanut (Arachis spp.) by Developing and Applying Cost‐Effective Kompetitive Allele Specific Polymerase Chain Reaction Genotyping Assays (2013, neutral): “X (Liu and Muse, 2005).”
Genotyping a large collection of pepper (Capsicum spp.) with SSR loci brings new evidence for the wild origin of cultivated C. annuum and the structuring of genetic diversity by human selection of cultivar types (2013, methodology): “…analysis The number of alleles, the number of genotypes, the Nei’s unbiased gene diversity index (He), the observed heterozygosity (Ho), and Polymorphism Information Content (PIC) were calculated using the Power Marker version 3.25 software (Liu and Muse 2005, http:// www.powermarker.net).”