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BACKGROUND High density genetic maps of plants have, nearly without exception, made use of marker datasets containing missing or questionable genotype calls derived from a variety of genic and non-genic or anonymous markers, and been presented as a single linear order of genetic loci for each linkage group. The consequences of missing or erroneous data(More)
BACKGROUND Molecular marker technologies are undergoing a transition from largely serial assays measuring DNA fragment sizes to hybridization-based technologies with high multiplexing levels. Diversity Arrays Technology (DArT) is a hybridization-based technology that is increasingly being adopted by barley researchers. There is a need to integrate the(More)
In recent years, access to complete genomic sequences, coupled with rapidly accumulating data related to RNA and protein expression patterns, has made it possible to determine comprehensively how genes contribute to complex phenotypes. However, for major crop plants, publicly available, standard platforms for parallel expression analysis have been limited.(More)
Quantitative trait locus (QTL) main effects and QTL by environment (QTLxE) interactions for seven agronomic traits (grain yield, days to heading, days to maturity, plant height, lodging severity, kernel weight, and test weight) were investigated in a two-row barley (Hordeum vulgare L.) cross, Barrington/TR306. A 127-point base map was constructed from(More)
BACKGROUND Codon usage bias has been widely reported to correlate with GC composition. However, the quantitative relationship between codon usage bias and GC composition across species has not been reported. RESULTS Based on an informatics method (SCUO) we developed previously using Shannon informational theory and maximum entropy theory, we investigated(More)
Eukaryotic chromosomes terminate with specialized structures called telomeres. Maintenance of chromosomal ends in most eukaryotes studied to date requires a specialized enzyme, telomerase. Telomerase has been shown to be developmentally regulated in man and a few other multicellular organisms, while it is constitutively expressed in unicellular eukaryotes.(More)
BACKGROUND A typical genetical genomics experiment results in four separate data sets; genotype, gene expression, higher-order phenotypic data and metadata that describe the protocols, processing and the array platform. Used in concert, these data sets provide the opportunity to perform genetic analysis at a systems level. Their predictive power is largely(More)
Barley (Hordeum vulgare L.) possesses a large and highly repetitive genome of 5.1 Gb that has hindered the development of a complete sequence. In 2012, the International Barley Sequencing Consortium released a resource integrating whole-genome shotgun sequences with a physical and genetic framework. However, because only 6278 bacterial artificial chromosome(More)
This study describes the generation, screening, genetic and molecular characterization, and high-resolution mapping of barley mutants susceptible to stem rust ( Puccinia graminis f. sp. tritici ) races MCCF and HKHJ. A single gene, Rpg1, has protected barley cultivars against many races of stem rust pathogen (Puccinia graminis f. sp. tritici) for the last(More)
• Analyzed high-throughput genomic, genetic, and epigenetic data sets in glioma. • Developed a tool for reverse engineering gene regulatory networks via parallel programming. • Involved in developing a web-based tool for assigning glioma patients to specific molecular subtypes. • Involved in developing a web-based tool for reporting copy number alterations(More)