Development and implementation of high-throughput SNP genotyping in barley.

A physical, genetic and functional sequence assembly of the barley genome. Nature (2012) 7.25

Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach. PLoS One (2012) 5.64

Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley. BMC Genomics (2011) 3.42

Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell (2011) 3.03

Development and evaluation of SoySNP50K, a high-density genotyping array for soybean. PLoS One (2013) 2.40

A next-generation sequencing method for genotyping-by-sequencing of highly heterozygous autotetraploid potato. PLoS One (2013) 2.22

Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell (2011) 1.98

Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome. Proc Natl Acad Sci U S A (2010) 1.96

High-throughput SNP discovery and assay development in common bean. BMC Genomics (2010) 1.79

Genome-wide association studies for agronomical traits in a world wide spring barley collection. BMC Plant Biol (2012) 1.79

NGS technologies for analyzing germplasm diversity in genebanks. Brief Funct Genomics (2012) 1.76

Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes. Plant Biotechnol J (2012) 1.75

High-throughput SNP discovery and genotyping for constructing a saturated linkage map of chickpea (Cicer arietinum L.). DNA Res (2012) 1.66

INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domestication gene TEOSINTE BRANCHED 1. Nat Genet (2011) 1.63

Population- and genome-specific patterns of linkage disequilibrium and SNP variation in spring and winter wheat (Triticum aestivum L.). BMC Genomics (2010) 1.62

Genetic dissection of barley morphology and development. Plant Physiol (2010) 1.61

CLARK: fast and accurate classification of metagenomic and genomic sequences using discriminative k-mers. BMC Genomics (2015) 1.54

Highly-multiplexed SNP genotyping for genetic mapping and germplasm diversity studies in pea. BMC Genomics (2010) 1.50

SNP Discovery through Next-Generation Sequencing and Its Applications. Int J Plant Genomics (2012) 1.46

Identification of manganese efficiency candidate genes in winter barley (Hordeum vulgare) using genome wide association mapping. BMC Genomics (2016) 1.44

Dynamics of long-term genomic selection. Genet Sel Evol (2010) 1.43

An evaluation of genotyping by sequencing (GBS) to map the Breviaristatum-e (ari-e) locus in cultivated barley. BMC Genomics (2014) 1.37

Induced mutations in circadian clock regulator Mat-a facilitated short-season adaptation and range extension in cultivated barley. Proc Natl Acad Sci U S A (2012) 1.37

Integration of linkage maps for the Amphidiploid Brassica napus and comparative mapping with Arabidopsis and Brassica rapa. BMC Genomics (2011) 1.36

Genomics and bioinformatics resources for crop improvement. Plant Cell Physiol (2010) 1.33

Ancient orphan crop joins modern era: gene-based SNP discovery and mapping in lentil. BMC Genomics (2013) 1.24

High-throughput SNP genotyping in the highly heterozygous genome of Eucalyptus: assay success, polymorphism and transferability across species. BMC Plant Biol (2011) 1.20

SNPs in stress-responsive rice genes: validation, genotyping, functional relevance and population structure. BMC Genomics (2012) 1.18

High-throughput phenotyping to detect drought tolerance QTL in wild barley introgression lines. PLoS One (2014) 1.15

Large-scale development of cost-effective single-nucleotide polymorphism marker assays for genetic mapping in pigeonpea and comparative mapping in legumes. DNA Res (2012) 1.15

Performance of single nucleotide polymorphisms versus haplotypes for genome-wide association analysis in barley. PLoS One (2010) 1.11

Application of genomic tools in plant breeding. Curr Genomics (2012) 1.09

Construction of a high-density composite map and comparative mapping of segregation distortion regions in barley. Mol Genet Genomics (2010) 1.09

HvLUX1 is a candidate gene underlying the early maturity 10 locus in barley: phylogeny, diversity, and interactions with the circadian clock and photoperiodic pathways. New Phytol (2013) 1.09

Patterns of polymorphism and linkage disequilibrium in cultivated barley. Theor Appl Genet (2010) 1.07

A multi-population consensus genetic map reveals inconsistent marker order among maps likely attributed to structural variations in the apple genome. PLoS One (2012) 1.07

SNP discovery and chromosome anchoring provide the first physically-anchored hexaploid oat map and reveal synteny with model species. PLoS One (2013) 1.07

Global landscape of a co-expressed gene network in barley and its application to gene discovery in Triticeae crops. Plant Cell Physiol (2011) 1.06

Integrating cereal genomics to support innovation in the Triticeae. Funct Integr Genomics (2012) 1.06

The USDA barley core collection: genetic diversity, population structure, and potential for genome-wide association studies. PLoS One (2014) 1.04

Genome dynamics explain the evolution of flowering time CCT domain gene families in the Poaceae. PLoS One (2012) 1.03

A transcriptome map of perennial ryegrass (Lolium perenne L.). BMC Genomics (2012) 1.03

Mixed model association scans of multi-environmental trial data reveal major loci controlling yield and yield related traits in Hordeum vulgare in Mediterranean environments. Theor Appl Genet (2011) 1.03

Association mapping of spot blotch resistance in wild barley. Mol Breed (2010) 1.02

Six-rowed spike4 (Vrs4) controls spikelet determinacy and row-type in barley. Proc Natl Acad Sci U S A (2013) 1.02

Barley landraces are characterized by geographically heterogeneous genomic origins. Genome Biol (2015) 1.02

Comparative visualization of genetic and physical maps with Strudel. Bioinformatics (2011) 1.01

The Cer-cqu gene cluster determines three key players in a β-diketone synthase polyketide pathway synthesizing aliphatics in epicuticular waxes. J Exp Bot (2016) 1.00

Reticulate evolution of the rye genome. Plant Cell (2013) 1.00

Unlocking Triticeae genomics to sustainably feed the future. Plant Cell Physiol (2013) 0.98

High-throughput SNP genotyping in Cucurbita pepo for map construction and quantitative trait loci mapping. BMC Genomics (2012) 0.98

Development and implementation of a highly-multiplexed SNP array for genetic mapping in maritime pine and comparative mapping with loblolly pine. BMC Genomics (2011) 0.97

Genome-wide association mapping of frost tolerance in barley (Hordeum vulgare L.). BMC Genomics (2013) 0.96

Genome-wide SNPs and re-sequencing of growth habit and inflorescence genes in barley: implications for association mapping in germplasm arrays varying in size and structure. BMC Genomics (2010) 0.96

SNP Discovery for mapping alien introgressions in wheat. BMC Genomics (2014) 0.96

Genome-wide association mapping for kernel and malting quality traits using historical European barley records. PLoS One (2014) 0.95

High-Resolution Genotyping of Wild Barley Introgression Lines and Fine-Mapping of the Threshability Locus thresh-1 Using the Illumina GoldenGate Assay. G3 (Bethesda) (2011) 0.95

Population structure and linkage disequilibrium in elite barley breeding germplasm from the United States. J Zhejiang Univ Sci B (2012) 0.95

Quantitative and qualitative stem rust resistance factors in barley are associated with transcriptional suppression of defense regulons. PLoS Genet (2011) 0.95

Mapping-by-sequencing identifies HvPHYTOCHROME C as a candidate gene for the early maturity 5 locus modulating the circadian clock and photoperiodic flowering in barley. Genetics (2014) 0.94

454 sequencing of pooled BAC clones on chromosome 3H of barley. BMC Genomics (2011) 0.94

Gene and QTL detection in a three-way barley cross under selection by a mixed model with kinship information using SNPs. Theor Appl Genet (2011) 0.94

Dwarf alleles differentially affect barley root traits influencing nitrogen acquisition under low nutrient supply. J Exp Bot (2011) 0.94

Specific patterns of gene space organisation revealed in wheat by using the combination of barley and wheat genomic resources. BMC Genomics (2010) 0.94

Genome wide SNP discovery in flax through next generation sequencing of reduced representation libraries. BMC Genomics (2012) 0.93

Genome-wide SNP-genotyping array to study the evolution of the human pathogen Vibrio vulnificus biotype 3. PLoS One (2014) 0.92

Combining genetical genomics and bulked segregant analysis-based differential expression: an approach to gene localization. Theor Appl Genet (2011) 0.92

Genetic diversity and ecological niche modelling of wild barley: refugia, large-scale post-LGM range expansion and limited mid-future climate threats? PLoS One (2014) 0.90

Saturation of an intra-gene pool linkage map: towards a unified consensus linkage map for fine mapping and synteny analysis in common bean. PLoS One (2011) 0.90

Comparative analyses identify the contributions of exotic donors to disease resistance in a barley experimental population. G3 (Bethesda) (2013) 0.90

The differential expression of HvCO9, a member of the CONSTANS-like gene family, contributes to the control of flowering under short-day conditions in barley. J Exp Bot (2011) 0.89

A genome wide association scan for (1,3;1,4)-β-glucan content in the grain of contemporary 2-row Spring and Winter barleys. BMC Genomics (2014) 0.89

Two genomic regions contribute disproportionately to geographic differentiation in wild barley. G3 (Bethesda) (2014) 0.89

Combinatorial pooling enables selective sequencing of the barley gene space. PLoS Comput Biol (2013) 0.88

Association mapping of stem rust race TTKSK resistance in US barley breeding germplasm. Theor Appl Genet (2014) 0.88

Evaluation of diagnostic molecular markers for DUS phenotypic assessment in the cereal crop, barley (Hordeum vulgare ssp. vulgare L.). Theor Appl Genet (2012) 0.86

Improvement of barley genome annotations by deciphering the Haruna Nijo genome. DNA Res (2015) 0.86

Discovery of high-confidence single nucleotide polymorphisms from large-scale de novo analysis of leaf transcripts of Aegilops tauschii, a wild wheat progenitor. DNA Res (2012) 0.86

Differential gene expression in nearly isogenic lines with QTL for partial resistance to Puccinia hordei in barley. BMC Genomics (2010) 0.85

A reference consensus genetic map for molecular markers and economically important traits in faba bean (Vicia faba L.). BMC Genomics (2013) 0.84

The study of two barley type I-like MADS-box genes as potential targets of epigenetic regulation during seed development. BMC Plant Biol (2012) 0.84

Exploitation of interspecific diversity for monocot crop improvement. Heredity (Edinb) (2013) 0.84

The low-recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression. Plant J (2014) 0.84

Sequencing of 15 622 gene-bearing BACs clarifies the gene-dense regions of the barley genome. Plant J (2015) 0.84

Quantitative Trait Loci for Yield and Yield-Related Traits in Spring Barley Populations Derived from Crosses between European and Syrian Cultivars. PLoS One (2016) 0.83

Genome-wide distribution of genetic diversity and linkage disequilibrium in a mass-selected population of maritime pine. BMC Genomics (2014) 0.82

New algorithm improves fine structure of the barley consensus SNP map. BMC Genomics (2011) 0.82

Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. PLoS One (2015) 0.82

Next-generation transcriptome sequencing, SNP discovery and validation in four market classes of peanut, Arachis hypogaea L. Mol Genet Genomics (2015) 0.82

Inversions of chromosome arms 4AL and 2BS in wheat invert the patterns of chiasma distribution. Chromosoma (2011) 0.82

Haplotyping, linkage mapping and expression analysis of barley genes regulated by terminal drought stress influencing seed quality. BMC Plant Biol (2011) 0.81

Hordeum chilense genome, a useful tool to investigate the endosperm yellow pigment content in the Triticeae. BMC Plant Biol (2012) 0.81

Quantitative high resolution mapping of HvMLH3 foci in barley pachytene nuclei reveals a strong distal bias and weak interference. J Exp Bot (2013) 0.81

High density linkage mapping of genomic and transcriptomic SNPs for synteny analysis and anchoring the genome sequence of chickpea. Sci Rep (2015) 0.81

Identification, utilisation and mapping of novel transcriptome-based markers from blackcurrant (Ribes nigrum). BMC Plant Biol (2011) 0.81

Genetic diversity in tef [Eragrostis tef (Zucc.) Trotter]. Front Plant Sci (2015) 0.81

Development and Genetic Characterization of an Advanced Backcross-Nested Association Mapping (AB-NAM) Population of Wild × Cultivated Barley. Genetics (2016) 0.81

Detection of QTLs for salt tolerance in Asian barley (Hordeum vulgare L.) by association analysis with SNP markers. Breed Sci (2014) 0.81

Development of genome-wide InDel markers and their integration with SSR, DArT and SNP markers in single barley map. BMC Genomics (2015) 0.81

Genetic diversity and association mapping in the Colombian Central Collection of Solanum tuberosum L. Andigenum group using SNPs markers. PLoS One (2017) 0.81

CAP3: A DNA sequence assembly program. Genome Res (1999) 50.04

Comparative DNA sequence analysis of wheat and rice genomes. Genome Res (2003) 3.63

Identification and characterization of shared duplications between rice and wheat provide new insight into grass genome evolution. Plant Cell (2008) 3.25

A high-density consensus map of barley linking DArT markers to SSR, RFLP and STS loci and agricultural traits. BMC Genomics (2006) 3.18

Chiasma and recombination data in plants: are they compatible? Trends Genet (1993) 3.18

Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. PLoS Genet (2008) 3.13

A molecular, isozyme and morphological map of the barley (Hordeum vulgare) genome. Theor Appl Genet (1993) 2.66

A high density barley microsatellite consensus map with 775 SSR loci. Theor Appl Genet (2007) 2.50

A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics. Theor Appl Genet (2007) 2.44

A new resource for cereal genomics: 22K barley GeneChip comes of age. Plant Physiol (2004) 2.33

Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress. Mol Genet Genomics (2005) 2.16

Gene expression quantitative trait locus analysis of 16 000 barley genes reveals a complex pattern of genome-wide transcriptional regulation. Plant J (2007) 1.86

Detecting single-feature polymorphisms using oligonucleotide arrays and robustified projection pursuit. Bioinformatics (2005) 1.79

A high-density transcript linkage map of barley derived from a single population. Heredity (Edinb) (2009) 1.59

A high-density consensus map of barley to compare the distribution of QTLs for partial resistance to Puccinia hordei and of defence gene homologues. Theor Appl Genet (2006) 1.52

Coupling amplified DNA from flow-sorted chromosomes to high-density SNP mapping in barley. BMC Genomics (2008) 1.45

A graph-theoretic approach to comparing and integrating genetic, physical and sequence-based maps. Genetics (2003) 1.41

On the accurate construction of consensus genetic maps. Comput Syst Bioinformatics Conf (2008) 1.36

Dehydrin gene expression provides an indicator of low temperature and drought stress: transcriptome-based analysis of barley (Hordeum vulgare L.). Funct Integr Genomics (2008) 1.32

Transcriptome analysis of cold acclimation in barley albina and xantha mutants. Plant Physiol (2006) 1.31

Expression analysis of barley (Hordeum vulgare L.) during salinity stress. Funct Integr Genomics (2006) 1.27

EST-derived single nucleotide polymorphism markers for assembling genetic and physical maps of the barley genome. Funct Integr Genomics (2007) 1.23

A genetic map of 1,000 SSR and DArT markers in a wide barley cross. Theor Appl Genet (2007) 1.11

Genome sequence and analysis of the tuber crop potato. Nature (2011) 7.77

Genic microsatellite markers in plants: features and applications. Trends Biotechnol (2005) 7.70

A physical, genetic and functional sequence assembly of the barley genome. Nature (2012) 7.25

454 sequencing put to the test using the complex genome of barley. BMC Genomics (2006) 6.12

Natural variation in human membrane transporter genes reveals evolutionary and functional constraints. Proc Natl Acad Sci U S A (2003) 5.77

Diversity Arrays Technology (DArT) for whole-genome profiling of barley. Proc Natl Acad Sci U S A (2004) 4.70

Characterization of polyploid wheat genomic diversity using a high-density 90,000 single nucleotide polymorphism array. Plant Biotechnol J (2014) 4.02

Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol Biol (2002) 3.80

Agriculture: Feeding the future. Nature (2013) 3.75

Large deletions within the first intron in VRN-1 are associated with spring growth habit in barley and wheat. Mol Genet Genomics (2005) 3.63

Comparative DNA sequence analysis of wheat and rice genomes. Genome Res (2003) 3.63

Magnitude and distribution of linkage disequilibrium in population isolates and implications for genome-wide association studies. Nat Genet (2006) 3.54

Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. Proc Natl Acad Sci U S A (2013) 3.48

Construction and application for QTL analysis of a Restriction Site Associated DNA (RAD) linkage map in barley. BMC Genomics (2011) 3.42

TOPALi v2: a rich graphical interface for evolutionary analyses of multiple alignments on HPC clusters and multi-core desktops. Bioinformatics (2008) 3.21

A high-density consensus map of barley linking DArT markers to SSR, RFLP and STS loci and agricultural traits. BMC Genomics (2006) 3.18

Efficient and accurate construction of genetic linkage maps from the minimum spanning tree of a graph. PLoS Genet (2008) 3.13

RNA-Seq Atlas of Glycine max: a guide to the soybean transcriptome. BMC Plant Biol (2010) 3.12

In silico analysis on frequency and distribution of microsatellites in ESTs of some cereal species. Cell Mol Biol Lett (2002) 3.04

Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell (2011) 3.03

Recent history of artificial outcrossing facilitates whole-genome association mapping in elite inbred crop varieties. Proc Natl Acad Sci U S A (2006) 2.90

Construction of a 10,000-marker ultradense genetic recombination map of potato: providing a framework for accelerated gene isolation and a genomewide physical map. Genetics (2006) 2.89

Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene. Proc Natl Acad Sci U S A (2007) 2.82

The draft genome of sweet orange (Citrus sinensis). Nat Genet (2012) 2.81

A structured mutant population for forward and reverse genetics in Barley (Hordeum vulgare L.). Plant J (2004) 2.77

Genomics-assisted breeding for crop improvement. Trends Plant Sci (2005) 2.77

The organization and rate of evolution of wheat genomes are correlated with recombination rates along chromosome arms. Genome Res (2003) 2.62

A single domestication for potato based on multilocus amplified fragment length polymorphism genotyping. Proc Natl Acad Sci U S A (2005) 2.60

Assessing genetic diversity and population structure in a citrus germplasm collection utilizing simple sequence repeat markers (SSRs). Theor Appl Genet (2006) 2.49

TOPALi: software for automatic identification of recombinant sequences within DNA multiple alignments. Bioinformatics (2004) 2.44

A 1,000-loci transcript map of the barley genome: new anchoring points for integrative grass genomics. Theor Appl Genet (2007) 2.44

Isolation and characterization of novel microsatellite markers and their application for diversity assessment in cultivated groundnut (Arachis hypogaea). BMC Plant Biol (2008) 2.43

Integrated epigenomics identifies BMP4 as a modulator of cisplatin sensitivity in gastric cancer. Gut (2012) 2.36

Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley. Nat Genet (2012) 2.34

A new resource for cereal genomics: 22K barley GeneChip comes of age. Plant Physiol (2004) 2.33

A consensus genetic map of cowpea [Vigna unguiculata (L) Walp.] and synteny based on EST-derived SNPs. Proc Natl Acad Sci U S A (2009) 2.32

Immune profile and mitotic index of metastatic melanoma lesions enhance clinical staging in predicting patient survival. Proc Natl Acad Sci U S A (2009) 2.32

Comparative transcriptional profiling of two contrasting rice genotypes under salinity stress during the vegetative growth stage. Plant Physiol (2005) 2.28

An aluminum-activated citrate transporter in barley. Plant Cell Physiol (2007) 2.24

Genome-wide SNP discovery and linkage analysis in barley based on genes responsive to abiotic stress. Mol Genet Genomics (2005) 2.16

Single-feature polymorphism discovery in the barley transcriptome. Genome Biol (2005) 2.15

Empirical likelihood for cumulative hazard ratio estimation with covariate adjustment. Biometrics (2011) 2.05

Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries. Plant Physiol (2011) 2.04

Evolutionary conservation predicts function of variants of the human organic cation transporter, OCT1. Proc Natl Acad Sci U S A (2003) 2.03

A probabilistic method for small RNA flowgram matching. Pac Symp Biocomput (2008) 2.03

Identification, characterization and utilization of EST-derived genic microsatellite markers for genome analyses of coffee and related species. Theor Appl Genet (2006) 2.02

Anchoring and ordering NGS contig assemblies by population sequencing (POPSEQ). Plant J (2013) 2.02

Molecular and structural characterization of barley vernalization genes. Plant Mol Biol (2005) 2.01

HTPheno: an image analysis pipeline for high-throughput plant phenotyping. BMC Bioinformatics (2011) 1.98

Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives. Plant Cell (2011) 1.98

Genome-wide association mapping to candidate polymorphism resolution in the unsequenced barley genome. Proc Natl Acad Sci U S A (2010) 1.96

Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates. Proc Natl Acad Sci U S A (2003) 1.90

Cereal breeding takes a walk on the wild side. Trends Genet (2007) 1.88

Gene expression quantitative trait locus analysis of 16 000 barley genes reveals a complex pattern of genome-wide transcriptional regulation. Plant J (2007) 1.86

Map-based isolation of the leaf rust disease resistance gene Lr10 from the hexaploid wheat (Triticum aestivum L.) genome. Proc Natl Acad Sci U S A (2003) 1.85

BRAT: bisulfite-treated reads analysis tool. Bioinformatics (2009) 1.81