Omics-based hybrid prediction in maize

MATRILINEAL, a sperm-specific phospholipase, triggers maize haploid induction

(2017) Timothy Kelliher et al.   NATURE

Metabolic robustness in young roots underpins a predictive model of maize hybrid performance in the field

(2017) Francisco de Abreu e Lima et al.   PLANT JOURNAL

Real-time measurement of small molecules directly in awake, ambulatory animals

(2017) Netzahualcóyotl Arroyo-Currás et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prediction of hybrid performance in maize with a ridge regression model employed to DNA markers and mRNA transcription profiles

(2016) Carola Zenke-Philippi et al.   BMC GENOMICS

Genotypic Context and Epistasis in Individuals and Populations

(2016) Timothy B. Sackton et al.   CELL

Comparison of Genotypic and Expression Data to Determine Distinctness among Inbred Lines of Maize for Granting of Plant Variety Protection

(2016) Bradford D. Hall et al.   CROP SCIENCE

Accuracy of Genomic Prediction in Synthetic Populations Depending on the Number of Parents, Relatedness, and Ancestral Linkage Disequilibrium

(2016) Pascal Schopp et al.   GENETICS

Detecting Sources of Transcriptional Heterogeneity in Large-Scale RNA-Seq Data Sets

(2016) Brian C. Searle et al.   GENETICS

Increased Proportion of Variance Explained and Prediction Accuracy of Survival of Breast Cancer Patients with Use of Whole-Genome Multiomic Profiles

(2016) A. I. Vazquez et al.   GENETICS

Metabolomic prediction of yield in hybrid rice

(2016) Shizhong Xu et al.   PLANT JOURNAL

Epistasis and covariance: how gene interaction translates into genomic relationship

(2016) Johannes W. R. Martini et al.   THEORETICAL AND APPLIED GENETICS

Evaluation of the utility of gene expression and metabolic information for genomic prediction in maize

(2016) Zhigang Guo et al.   THEORETICAL AND APPLIED GENETICS

General and specific combining abilities in a maize (Zea mays L.) test-cross hybrid panel: relative importance of population structure and genetic divergence between parents

(2016) A. Larièpe et al.   THEORETICAL AND APPLIED GENETICS

Metabolic prediction of important agronomic traits in hybrid rice (Oryza sativa L.)

(2016) Zhiwu Dan et al.   Scientific Reports

Accuracy of Genomic Prediction in Synthetic Populations Depending on the Number of Parents, Relatedness, and Ancestral Linkage Disequilibrium

(2016) Pascal Schopp et al.   GENETICS

Detecting Sources of Transcriptional Heterogeneity in Large-Scale RNA-Seq Data Sets

(2016) Brian C. Searle et al.   GENETICS

The Genomic Impacts of Drift and Selection for Hybrid Performance in Maize

(2015) J. P. Gerke et al.   GENETICS

Modeling Epistasis in Genomic Selection

(2015) Yong Jiang et al.   GENETICS

Methods of integrating data to uncover genotype–phenotype interactions

(2015) Marylyn D. Ritchie et al.   NATURE REVIEWS GENETICS

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Dynamic maize responses to aphid feeding are revealed by a time series of transcriptomic and metabolomic assays

(2015) Vered Tzin et al.   PLANT PHYSIOLOGY

Transcriptome and Metabolite Profiling of the Infection Cycle ofZymoseptoria triticion Wheat Reveals a Biphasic Interaction with Plant Immunity Involving Differential Pathogen Chromosomal Contributions and a Variation on the Hemibiotrophic Lifestyle Definition

(2015) Jason J. Rudd et al.   PLANT PHYSIOLOGY

Genome-based establishment of a high-yielding heterotic pattern for hybrid wheat breeding

(2015) Yusheng Zhao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The human transcriptome across tissues and individuals

(2015) M. Mele et al.   SCIENCE

Genomic selection in wheat: optimum allocation of test resources and comparison of breeding strategies for line and hybrid breeding

(2015) C. Friedrich H. Longin et al.   THEORETICAL AND APPLIED GENETICS

Synchronized age-related gene expression changes across multiple tissues in human and the link to complex diseases

(2015) Jialiang Yang et al.   Scientific Reports

Modeling Epistasis in Genomic Selection

(2015) Yong Jiang et al.   GENETICS

Genome-wide meta-analysis of maize heterosis reveals the potential role of additive gene expression at pericentromeric loci

(2014) Alexander Thiemann et al.   BMC PLANT BIOLOGY

Genome Properties and Prospects of Genomic Prediction of Hybrid Performance in a Breeding Program of Maize

(2014) Frank Technow et al.   GENETICS

Genome-Wide Regression and Prediction with the BGLR Statistical Package

(2014) P. Perez et al.   GENETICS

Genetic interactions affecting human gene expression identified by variance association mapping

(2014) Andrew Anand Brown et al.   eLife

The effects of genetic variation on gene expression dynamics during development

(2013) Mirko Francesconi et al.   NATURE

Epistasis and quantitative traits: using model organisms to study gene–gene interactions

(2013) Trudy F. C. Mackay   NATURE REVIEWS GENETICS

Systems genetics approaches to understand complex traits

(2013) Mete Civelek et al.   NATURE REVIEWS GENETICS

A reaction norm model for genomic selection using high-dimensional genomic and environmental data

(2013) Diego Jarquín et al.   THEORETICAL AND APPLIED GENETICS

Determination of Methane Fermentation Yield and its Kinetics by near Infrared Spectroscopy and Chemical Composition in Maize

(2012) Christoph Grieder et al.   JOURNAL OF NEAR INFRARED SPECTROSCOPY

Genomic and metabolic prediction of complex heterotic traits in hybrid maize

(2012) Christian Riedelsheimer et al.   NATURE GENETICS

Metabolomics: the apogee of the omics trilogy

(2012) Gary J. Patti et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

On the Discordance of Metabolomics with Proteomics and Transcriptomics: Coping with Increasing Complexity in Logic, Chemistry, and Network Interactions Scientific Correspondence

(2012) A. R. Fernie et al.   PLANT PHYSIOLOGY

Genomewide predictions from maize single-cross data

(2012) Jon M. Massman et al.   THEORETICAL AND APPLIED GENETICS

Stitching together Multiple Data Dimensions Reveals Interacting Metabolomic and Transcriptomic Networks That Modulate Cell Regulation

(2012) Jun Zhu et al.   PLOS BIOLOGY

October 2011

(2011)   ANNALS OF NEUROLOGY

Metabolic and Phenotypic Responses of Greenhouse-Grown Maize Hybrids to Experimentally Controlled Drought Stress

(2011) Sandra Witt et al.   Molecular Plant

Corn hybrids display lower metabolite variability and complex metabolite inheritance patterns

(2011) Jan Lisec et al.   PLANT JOURNAL

High-density kinetic analysis of the metabolomic and transcriptomic response of Arabidopsis to eight environmental conditions

(2011) Camila Caldana et al.   PLANT JOURNAL

A Large Maize (Zea mays L.) SNP Genotyping Array: Development and Germplasm Genotyping, and Genetic Mapping to Compare with the B73 Reference Genome

(2011) Martin W. Ganal et al.   PLoS One

The circadian oscillator gene GIGANTEA mediates a long-term response of the Arabidopsis thaliana circadian clock to sucrose

(2011) N. Dalchau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Breeding maize as biogas substrate in Central Europe: II. Quantitative-genetic parameters for inbred lines and correlations with testcross performance

(2011) Christoph Grieder et al.   THEORETICAL AND APPLIED GENETICS

Genome-wide gene expression regulation as a function of genotype and age in C. elegans

(2010) A. Vinuela et al.   GENOME RESEARCH

Variance component model to account for sample structure in genome-wide association studies

(2010) Hyun Min Kang et al.   NATURE GENETICS

A Unified Approach to Genotype Imputation and Haplotype-Phase Inference for Large Data Sets of Trios and Unrelated Individuals

(2009) Brian L. Browning et al.   AMERICAN JOURNAL OF HUMAN GENETICS

The genetics of quantitative traits: challenges and prospects

(2009) Trudy F. C. Mackay et al.   NATURE REVIEWS GENETICS

Use of reverse-phase liquid chromatography, linked to tandem mass spectrometry, to profile the Calvin cycle and other metabolic intermediates in Arabidopsis rosettes at different carbon dioxide concentrations

(2009) Stéphanie Arrivault et al.   PLANT JOURNAL

Gene expression analyses in maize inbreds and hybrids with varying levels of heterosis

(2008) Robert M Stupar et al.   BMC PLANT BIOLOGY

Efficient Methods to Compute Genomic Predictions

(2008) P.M. VanRaden   JOURNAL OF DAIRY SCIENCE

Data and Theory Point to Mainly Additive Genetic Variance for Complex Traits

(2008) William G. Hill et al.   PLoS Genetics