The contribution of cis- and trans-acting variants to gene regulation in wild and domesticated barley under cold stress and control conditions

Allele-specific expression and genetic determinants of transcriptomic variations in response to mild water deficit in tomato

(2018) Elise Albert et al.   PLANT JOURNAL

Prospects of pan-genomics in barley

(2018) Cécile Monat et al.   THEORETICAL AND APPLIED GENETICS

Cis- andTrans-regulatory Effects on Gene Expression in a Natural Population ofDrosophila melanogaster

(2017) Naoki Osada et al.   GENETICS

A chromosome conformation capture ordered sequence of the barley genome

(2017) Martin Mascher et al.   NATURE

A quantitative genetic framework highlights the role of epistatic effects for grain-yield heterosis in bread wheat

(2017) Yong Jiang et al.   NATURE GENETICS

Direct Testing for Allele-Specific Expression Differences Between Conditions

(2017) Luis León-Novelo et al.   G3-Genes Genomes Genetics

Cis- andTrans-regulatory Effects on Gene Expression in a Natural Population ofDrosophila melanogaster

(2017) Naoki Osada et al.   GENETICS

Genome-wide patterns of regulatory divergence revealed by introgression lines

(2016) Rafael F. Guerrero et al.   EVOLUTION

Buffering of Genetic Regulatory Networks in Drosophila melanogaster

(2016) J. M. Fear et al.   GENETICS

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation

(2016) Joanne Russell et al.   NATURE GENETICS

Genomic Prediction of Barley Hybrid Performance

(2016) Norman Philipp et al.   Plant Genome

Evolution of the Grain Dispersal System in Barley

(2015) Mohammad Pourkheirandish et al.   CELL

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

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

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

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

e!DAL - a framework to store, share and publish research data

(2014) Daniel Arend et al.   BMC BIOINFORMATICS

Extensivecis-Regulatory Variation Robust to Environmental Perturbation inArabidopsis

(2014) Francisco A. Cubillos et al.   PLANT CELL

The Role of cis Regulatory Evolution in Maize Domestication

(2014) Zachary H. Lemmon et al.   PLoS Genetics

voom: precision weights unlock linear model analysis tools for RNA-seq read counts

(2014) Charity W Law et al.   GENOME BIOLOGY

Sources of bias in measures of allele-specific expression derived from RNA-seq data aligned to a single reference genome

(2013) Kraig R Stevenson et al.   BMC GENOMICS

Hybrid Breeding in Barley

(2013) Jonathan Mühleisen et al.   CROP SCIENCE

Analysis of Allele-Specific Expression in Mouse Liver by RNA-Seq: A Comparison With Cis -eQTL Identified Using Genetic Linkage

(2013) Sandrine Lagarrigue et al.   GENETICS

Barley whole exome capture: a tool for genomic research in the genusHordeumand beyond

(2013) Martin Mascher et al.   PLANT JOURNAL

Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato

(2013) D. Koenig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Extensive compensatory cis-trans regulation in the evolution of mouse gene expression

(2012) A. Goncalves et al.   GENOME RESEARCH

Allelic Imbalance in Drosophila Hybrid Heads: Exons, Isoforms, and Evolution

(2012) R. M. Graze et al.   MOLECULAR BIOLOGY AND EVOLUTION

Reshaping of the maize transcriptome by domestication

(2012) R. Swanson-Wagner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domestication gene TEOSINTE BRANCHED 1

(2011) Luke Ramsay et al.   NATURE GENETICS

Gene expression in developing fibres of Upland cotton (Gossypium hirsutum L.) was massively altered by domestication

(2010) Ryan A Rapp et al.   BMC BIOLOGY

Regulatory divergence in Drosophila revealed by mRNA-seq

(2010) C. J. McManus et al.   GENOME RESEARCH

Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data

(2009) Jacob F. Degner et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Global Analysis of Allele-Specific Expression in Arabidopsis thaliana

(2009) Xu Zhang et al.   GENETICS

Asymmetric allele-specific expression in relation to developmental variation and drought stress in barley hybrids

(2009) Maria von Korff et al.   PLANT JOURNAL

A Yeast Hybrid Provides Insight into the Evolution of Gene Expression Regulation

(2009) I. Tirosh et al.   SCIENCE

Regulatory changes underlying expression differences within and between Drosophila species

(2008) Patricia J Wittkopp et al.   NATURE GENETICS

Barley grain with adhering hulls is controlled by an ERF family transcription factor gene regulating a lipid biosynthesis pathway

(2008) S. Taketa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification and verification of QTLs for agronomic traits using wild barley introgression lines

(2008) Inga Schmalenbach et al.   THEORETICAL AND APPLIED GENETICS