Every data visualization can be improved with some level of interactivity. Interactive graphics hold particular promise for the exploration of high-dimensional data. R/qtlcharts is an R package to create interactive graphics for experiments to map quantitative trait loci (QTL) (genetic loci that influence quantitative traits). R/qtlcharts serves as a companion to the R/qtl package, providing in...

Most characteristics in living organisms show continuous variation, which suggests that they are controlled by multiple genes. Quantitative trait loci (QTL) analysis can identify the genes underlying continuous traits by establishing associations between genetic markers and observed phenotypic variation in a segregating population. The new high-throughput sequencing (HTS) technologies greatly f...

Genotype by environment interaction is a phenomenon that a better genotype in one environment may perform poorly in another environment. When the genotype refers to a quantitative trait locus (QTL), this phenomenon is called QTL by environment interaction, denoted by Q×E. Using a recently developed new Bayesian method and genome-wide marker information, we estimated and tested QTL main effects ...

Genome-wide evaluation uses the associations of a large number of single nucleotide polymorphism (SNP) markers across the whole genome and then combines the statistical methods with genomic data to predict the genetic values. Genomic predictions relieson linkage disequilibrium (LD) between genetic markers and quantitative trait loci (QTL) in a population. Methods that use all markers simultaneo...

A reversible jump Markov chain Monte Carlo (MCMC) algorithm is illustrated to infer the number of quantitative trait loci (QTL) a ecting a phenotypic trait, their chromosomal locations, and their e ects. A multi-loci model is t to quantitative trait and molecular marker data, with the trait response modeled as a linear function of the additive and dominance e ects of the unknown QTL genotypes. ...

Cryptococcus neoformans is a fungal human pathogen with a bipolar mating system. It undergoes a dimorphic transition from a unicellular yeast to hyphal filamentous growth during mating and monokaryotic fruiting. The traditional sexual cycle that leads to the production of infectious basidiospores involves cells of both alpha and a mating type. Monokaryotic fruiting is a modified form of sexual ...

the availability of the saturated dna marker maps in livestock has made it possible to locate quantitative trait loci (qtl) in these domestic animals. the objective of this research was to investigate the principles of applying the simple regression for qtl analysis in paternal half-sib (phs) design commonly used in livestock species. the theoretical aspects of the simple regression approach fo...

Quantitative epigenetics (QE) is a new area of research that combines some of the techniques developed for global quantitative trait loci (QTL) mapping analyses with epigenetic analyses. Quantitative traits such as height vary, not in a discrete or discontinuous fashion, but continuously, usually in a normal distribution. QTL analyses assume that allelic DNA sequence variation in a population i...

Flowering time is an important horticultural trait in almond since it is essential to avoid the late frosts that affect production in early flowering cultivars. Evaluation of this complex trait is a long process because of the prolonged juvenile period of trees and the influence of environmental conditions affecting gene expression year by year. In this research flowering time was studied in an...

Fusarium head blight (FHB) is a devastating wheat disease with significant economic impact. Fhb5 an important quantitative trait loci (QTL) conferring type I resistance to FHB. In this study, we accessed the usability of Kompetitive allele-specific polymerase chain reaction (KASP) marker for QTL on Fhb-5AS. The KASP clustering results were compared linked simple sequence repeat marker, wmc705 Q...