Genome-Wide DNA Polymorphisms in Seven Rice Cultivars of Temperate and Tropical Japonica Groups

Rice Annotation Project Database (RAP-DB): An Integrative and Interactive Database for Rice Genomics

(2013) Hiroaki Sakai et al.   PLANT AND CELL PHYSIOLOGY

High-Throughput SNP Discovery and Genotyping for Constructing a Saturated Linkage Map of Chickpea (Cicer arietinum L.)

(2012) R. Gaur et al.   DNA RESEARCH

Illumina Sequencing Technology as a Method of Identifying T-DNA Insertion Loci in Activation-Tagged Arabidopsis thaliana Plants

(2012) Joanna K. Polko et al.   Molecular Plant

A map of rice genome variation reveals the origin of cultivated rice

(2012) Xuehui Huang et al.   NATURE

Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach

(2012) Jesse A. Poland et al.   PLoS One

SNP Discovery and Development of a High-Density Genotyping Array for Sunflower

(2012) Eleni Bachlava et al.   PLoS One

Comparative studies of de novo assembly tools for next-generation sequencing technologies

(2011) Yong Lin et al.   BIOINFORMATICS

Core single-nucleotide polymorphisms—a tool for genetic analysis of the Japanese rice population

(2011) Hideki Nagasaki et al.   BREEDING SCIENCE

Development of genome-wide SNP assays for rice

(2011) Susan R. McCouch et al.   BREEDING SCIENCE

Characterization of the rice blast resistance gene Pik cloned from Kanto51

(2011) Ikuo Ashikawa et al.   MOLECULAR BREEDING

Discovery of Genome-Wide DNA Polymorphisms in a Landrace Cultivar of Japonica Rice by Whole-Genome Sequencing

(2011) Yuko Arai-Kichise et al.   PLANT AND CELL PHYSIOLOGY

Transpositional landscape of the rice genome revealed by paired-end mapping of high-throughput re-sequencing data

(2011) François Sabot et al.   PLANT JOURNAL

Next-generation mapping of Arabidopsis genes

(2011) Ryan S. Austin et al.   PLANT JOURNAL

Fine definition of the pedigree haplotypes of closely related rice cultivars by means of genome-wide discovery of single-nucleotide polymorphisms

(2010) Toshio Yamamoto et al.   BMC GENOMICS

Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines

(2010) Susanna Atwell et al.   NATURE

Genome-wide patterns of genetic variation among elite maize inbred lines

(2010) Jinsheng Lai et al.   NATURE GENETICS

Genome-wide association studies of 14 agronomic traits in rice landraces

(2010) Xuehui Huang et al.   NATURE GENETICS

Genomic Diversity and Introgression in O. sativa Reveal the Impact of Domestication and Breeding on the Rice Genome

(2010) Keyan Zhao et al.   PLoS One

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Comparative sequence analyses of the major quantitative trait locusphosphorusuptake1(Pup1) reveal a complex genetic structure

(2009) Sigrid Heuer et al.   PLANT BIOTECHNOLOGY JOURNAL

Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

(2009) K. L. McNally et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Next-generation sequencing technologies and their implications for crop genetics and breeding

(2009) Rajeev K. Varshney et al.   TRENDS IN BIOTECHNOLOGY

Two Adjacent Nucleotide-Binding Site-Leucine-Rich Repeat Class Genes Are Required to Confer Pikm-Specific Rice Blast Resistance

(2008) I. Ashikawa et al.   GENETICS

Mapping short DNA sequencing reads and calling variants using mapping quality scores

(2008) H. Li et al.   GENOME RESEARCH

Predicting Unobserved Phenotypes for Complex Traits from Whole-Genome SNP Data

(2008) Sang Hong Lee et al.   PLoS Genetics