Genome-wide association analyses provide genetic and biochemical insights into natural variation in rice metabolism

A Novel Integrated Method for Large-Scale Detection, Identification, and Quantification of Widely Targeted Metabolites: Application in the Study of Rice Metabolomics

(2013) Wei Chen et al.   Molecular Plant

Genetic analysis of the metabolome exemplified using a rice population

(2013) L. Gong et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Cytoplasmic genetic variation and extensive cytonuclear interactions influence natural variation in the metabolome

(2013) Bindu Joseph et al.   eLife

Exploring molecular backgrounds of quality traits in rice by predictive models based on high-coverage metabolomics

(2012) Henning Redestig et al.   BMC Systems Biology

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Purification and Identification of Naringenin 7-O-Methyltransferase, a Key Enzyme in Biosynthesis of Flavonoid Phytoalexin Sakuranetin in Rice

(2012) Takafumi Shimizu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

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

(2012) Xuehui Huang et al.   NATURE

Large-scale association analysis provides insights into the genetic architecture and pathophysiology of type 2 diabetes

(2012)   NATURE GENETICS

A Genome-Wide Regulatory Framework Identifies Maize Pericarp Color1 Controlled Genes

(2012) K. Morohashi et al.   PLANT CELL

Genetic composition of yield heterosis in an elite rice hybrid

(2012) G. Zhou et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize

(2012) C. Riedelsheimer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assembly of an Evolutionarily New Pathway for  -Pyrone Biosynthesis in Arabidopsis

(2012) J.-K. Weng et al.   SCIENCE

Mining the Biodiversity of Plants: A Revolution in the Making

(2012) V. De Luca et al.   SCIENCE

Evaluating the effective numbers of independent tests and significant p-value thresholds in commercial genotyping arrays and public imputation reference datasets

(2011) Miao-Xin Li et al.   HUMAN GENETICS

Deciphering Starch Quality of Rice Kernels Using Metabolite Profiling and Pedigree Network Analysis

(2011) Miyako Kusano et al.   Molecular Plant

Human metabolic individuality in biomedical and pharmaceutical research

(2011) Karsten Suhre et al.   NATURE

Genome-wide association study of flowering time and grain yield traits in a worldwide collection of rice germplasm

(2011) Xuehui Huang et al.   NATURE GENETICS

FaST linear mixed models for genome-wide association studies

(2011) Christoph Lippert et al.   NATURE METHODS

Plant Science and Human Nutrition: Challenges in Assessing Health-Promoting Properties of Phytochemicals

(2011) M. H. Traka et al.   PLANT CELL

Identification and characterization of a pyridoxal reductase involved in the vitamin B6 salvage pathway in Arabidopsis

(2011) Sonia Herrero et al.   PLANT MOLECULAR BIOLOGY

Gains in QTL Detection Using an Ultra-High Density SNP Map Based on Population Sequencing Relative to Traditional RFLP/SSR Markers

(2011) Huihui Yu et al.   PLoS One

Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa

(2011) Keyan Zhao et al.   Nature Communications

Combining Genome-Wide Association Mapping and Transcriptional Networks to Identify Novel Genes Controlling Glucosinolates in Arabidopsis thaliana

(2011) Eva K. F. Chan et al.   PLOS BIOLOGY

Genome-wide association studies in plants: the missing heritability is in the field

(2011) Benjamin Brachi et al.   GENOME BIOLOGY

Detection and identification of 700 drugs by multi-target screening with a 3200 Q TRAP® LC-MS/MS system and library searching

(2010) S. Dresen et al.   ANALYTICAL AND BIOANALYTICAL CHEMISTRY

Identification of drought-responsive compounds in potato through a combined transcriptomic and targeted metabolite approach

(2010) Danièle Evers et al.   JOURNAL OF EXPERIMENTAL BOTANY

Vitamin B6: A Molecule for Human Health?

(2010) Hanjo Hellmann et al.   MOLECULES

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

(2010) Susanna Atwell et al.   NATURE

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

(2010) Xuehui Huang et al.   NATURE GENETICS

A global analysis of QTLs for expression variations in rice shoots at the early seedling stage

(2010) Jia Wang et al.   PLANT JOURNAL

R2R3-NaMYB8 Regulates the Accumulation of Phenylpropanoid-Polyamine Conjugates, Which Are Essential for Local and Systemic Defense against Insect Herbivores in Nicotiana attenuata

(2010) H. Kaur et al.   PLANT PHYSIOLOGY

Metabolomic and Functional Genomic Analyses Reveal Varietal Differences in Bioactive Compounds of Cooked Rice

(2010) Adam L. Heuberger et al.   PLoS One

Parent-independent genotyping for constructing an ultrahigh-density linkage map based on population sequencing

(2010) W. Xie et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A core collection and mini core collection of Oryza sativa L. in China

(2010) Hongliang Zhang et al.   THEORETICAL AND APPLIED GENETICS

The Complex Genetic Architecture of the Metabolome

(2010) Eva K. F. Chan et al.   PLoS Genetics

Metabolomics for Functional Genomics, Systems Biology, and Biotechnology

(2009) Kazuki Saito et al.   Annual Review of Plant Biology

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Assessment of adaptive evolution between wheat and rice as deduced from full-length common wheat cDNA sequence data and expression patterns

(2009) Kanako Kawaura et al.   BMC GENOMICS

Genetical metabolomics: closing in on phenotypes

(2009) Joost JB Keurentjes   CURRENT OPINION IN PLANT BIOLOGY

Towards the Understanding of Complex Traits in Rice: Substantially or Superficially?

(2009) T. Yamamoto et al.   DNA RESEARCH

Gene expression and characterization of a stress-induced tyrosine decarboxylase fromArabidopsis thaliana

(2009) Thomas Lehmann et al.   FEBS LETTERS

Understanding the Evolution of Defense Metabolites in Arabidopsis thaliana Using Genome-wide Association Mapping

(2009) E. K. F. Chan et al.   GENETICS

Association mapping of stigma and spikelet characteristics in rice (Oryza sativa L.)

(2009) Wen Gui Yan et al.   MOLECULAR BREEDING

A Novel Polyamine Acyltransferase Responsible for the Accumulation of Spermidine Conjugates in Arabidopsis Seed

(2009) J. Luo et al.   PLANT CELL

CYP76M7 Is an ent-Cassadiene C11 -Hydroxylase Defining a Second Multifunctional Diterpenoid Biosynthetic Gene Cluster in Rice

(2009) S. Swaminathan et al.   PLANT CELL

AtMetExpress Development: A Phytochemical Atlas of Arabidopsis Development

(2009) F. Matsuda et al.   PLANT PHYSIOLOGY

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

The diploid genome sequence of an Asian individual

(2008) Jun Wang et al.   NATURE

Enrichment of tomato fruit with health-promoting anthocyanins by expression of select transcription factors

(2008) Eugenio Butelli et al.   NATURE BIOTECHNOLOGY

Biochemical Networks and Epistasis Shape the Arabidopsis thaliana Metabolome

(2008) H. C. Rowe et al.   PLANT CELL

AtMYB12 regulates caffeoyl quinic acid and flavonol synthesis in tomato: expression in fruit results in very high levels of both types of polyphenol

(2008) Jie Luo et al.   PLANT JOURNAL

Metabolomics-assisted breeding: a viable option for crop improvement?

(2008) Alisdair R. Fernie et al.   TRENDS IN GENETICS

Four glucosyltransferases from rice: cDNA cloning, expression, and characterization

(2007) Jae Hyung Ko et al.   JOURNAL OF PLANT PHYSIOLOGY