The developmental transcriptome atlas of the biofuel cropCamelina sativa

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Synthesis of oleyl oleate wax esters in Arabidopsis thaliana and Camelina sativa seed oil

(2015) Tim Iven et al.   PLANT BIOTECHNOLOGY JOURNAL

Metabolic engineering of oilseed crops to produce high levels of novel acetyl glyceride oils with reduced viscosity, freezing point and calorific value

(2015) Jinjie Liu et al.   PLANT BIOTECHNOLOGY JOURNAL

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

A deep survey of alternative splicing in grape reveals changes in the splicing machinery related to tissue, stress condition and genotype

(2014) Nicola Vitulo et al.   BMC PLANT BIOLOGY

Redirection of metabolic flux for high levels of omega-7 monounsaturated fatty acid accumulation in camelina seeds

(2014) Huu Tam Nguyen et al.   PLANT BIOTECHNOLOGY JOURNAL

Production of high levels of poly-3-hydroxybutyrate in plastids ofCamelina sativaseeds

(2014) Meghna R. Malik et al.   PLANT BIOTECHNOLOGY JOURNAL

Genome-Wide Analysis of Alternative Splicing in Zea mays: Landscape and Genetic Regulation

(2014) S. R. Thatcher et al.   PLANT CELL

Polyploid Evolution of the Brassicaceae during the Cenozoic Era

(2014) Sateesh Kagale et al.   PLANT CELL

Global Dissection of Alternative Splicing in Paleopolyploid Soybean

(2014) Yanting Shen et al.   PLANT CELL

Metabolic Engineering Camelina sativa with Fish Oil-Like Levels of DHA

(2014) James R. Petrie et al.   PLoS One

The emerging biofuel crop Camelina sativa retains a highly undifferentiated hexaploid genome structure

(2014) Sateesh Kagale et al.   Nature Communications

Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea

(2014) Isobel AP Parkin et al.   GENOME BIOLOGY

De novo assembly and characterization of Camelina sativa transcriptome by paired-end sequencing

(2013) Chao Liang et al.   BMC GENOMICS

RNA-Seq effectively monitors gene expression in Eutrema salsugineum plants growing in an extreme natural habitat and in controlled growth cabinet conditions

(2013) Marc J Champigny et al.   BMC GENOMICS

Genome-Wide Landscape of Alternative Splicing Events in Brachypodium distachyon

(2013) B. Walters et al.   DNA RESEARCH

PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors

(2013) Jinpu Jin et al.   NUCLEIC ACIDS RESEARCH

Camelina seed transcriptome: a tool for meal and oil improvement and translational research

(2013) Huu T. Nguyen et al.   PLANT BIOTECHNOLOGY JOURNAL

Alternative Splicing at the Intersection of Biological Timing, Development, and Stress Responses

(2013) D. Staiger et al.   PLANT CELL

Complexity of the Alternative Splicing Landscape in Plants

(2013) A. S. N. Reddy et al.   PLANT CELL

Successful high-level accumulation of fish oil omega-3 long-chain polyunsaturated fatty acids in a transgenic oilseed crop

(2013) Noemi Ruiz-Lopez et al.   PLANT JOURNAL

De novo transcriptome analysis of an imminent biofuel crop, Camelina sativa L. using Illumina GAIIX sequencing platform and identification of SSR markers

(2013) Shalini Mudalkar et al.   PLANT MOLECULAR BIOLOGY

Towards revealing the functions of all genes in plants

(2013) Seung Yon Rhee et al.   TRENDS IN PLANT SCIENCE

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Altered Patterns of Fractionation and Exon Deletions in Brassica rapa Support a Two-Step Model of Paleohexaploidy

(2012) H. Tang et al.   GENETICS

Transcriptome survey reveals increased complexity of the alternative splicing landscape inArabidopsis

(2012) Yamile Marquez et al.   GENOME RESEARCH

Gene Coexpression Networks in Human Brain Identify Epigenetic Modifications in Alcohol Dependence

(2012) I. Ponomarev et al.   JOURNAL OF NEUROSCIENCE

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

BAR expressolog identification: expression profile similarity ranking of homologous genes in plant species

(2012) Rohan V. Patel et al.   PLANT JOURNAL

Biased Gene Fractionation and Dominant Gene Expression among the Subgenomes of Brassica rapa

(2012) Feng Cheng et al.   PLoS One

Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples

(2012) Günter P. Wagner et al.   THEORY IN BIOSCIENCES

Alternative splicing in plants – coming of age

(2012) Naeem H. Syed et al.   TRENDS IN PLANT SCIENCE

Biodiesel from alternative oilseed feedstocks: camelina and field pennycress

(2012) Bryan R Moser   Biofuels-UK

Comparative Network Analysis Reveals That Tissue Specificity and Gene Function Are Important Factors Influencing the Mode of Expression Evolution in Arabidopsis and Rice

(2011) S. Movahedi et al.   PLANT PHYSIOLOGY

Differentiation of the maize subgenomes by genome dominance and both ancient and ongoing gene loss

(2011) J. C. Schnable et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Reality of Pervasive Transcription

(2011) Michael B. Clark et al.   PLOS BIOLOGY

Transcriptome sequencing and comparative analysis of cucumber flowers with different sex types

(2010) Shaogui Guo et al.   BMC GENOMICS

Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome

(2010) G. Zhang et al.   GENOME RESEARCH

Lowly Expressed Genes in Arabidopsis thaliana Bear the Signature of Possible Pseudogenization by Promoter Degradation

(2010) L. Yang et al.   MOLECULAR BIOLOGY AND EVOLUTION

Characterization of Transcriptional Complexity during Berry Development in Vitis vinifera Using RNA-Seq

(2010) S. Zenoni et al.   PLANT PHYSIOLOGY

Pervasive transcription constitutes a new level of eukaryotic genome regulation

(2009) Julia Berretta et al.   EMBO REPORTS

Genome-wide mapping of alternative splicing in Arabidopsis thaliana

(2009) S. A. Filichkin et al.   GENOME RESEARCH

A census of human transcription factors: function, expression and evolution

(2009) Juan M. Vaquerizas et al.   NATURE REVIEWS GENETICS

Legume Transcription Factor Genes: What Makes Legumes So Special?

(2009) M. Libault et al.   PLANT PHYSIOLOGY

Evolutionary and Expression Signatures of Pseudogenes in Arabidopsis and Rice

(2009) C. Zou et al.   PLANT PHYSIOLOGY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

ChIPping away at gene regulation

(2008) Charles E Massie et al.   EMBO REPORTS

A gene expression atlas of the model legumeMedicago truncatula

(2008) Vagner A. Benedito et al.   PLANT JOURNAL

A General Definition and Nomenclature for Alternative Splicing Events

(2008) Michael Sammeth et al.   PLoS Computational Biology