De Novo Characterization of Fall Dormant and Nondormant Alfalfa (Medicago sativa L.) Leaf Transcriptome and Identification of Candidate Genes Related to Fall Dormancy

The Draft Genome Sequence of European Pear (Pyrus communis L. ‘Bartlett’)

(2014) David Chagné et al.   PLoS One

Genome-Wide Identification of Different Dormant Medicago sativa L. MicroRNAs in Response to Fall Dormancy

(2014) Wenna Fan et al.   PLoS One

Analysis of the Alfalfa Root Transcriptome in Response to Salinity Stress

(2013) Olga A. Postnikova et al.   PLANT AND CELL PHYSIOLOGY

De Novo Transcriptome Sequence Assembly and Analysis of RNA Silencing Genes of Nicotiana benthamiana

(2013) Kenlee Nakasugi et al.   PLoS One

Ordinal-Level Phylogenomics of the Arthropod Class Diplopoda (Millipedes) Based on an Analysis of 221 Nuclear Protein-Coding Loci Generated Using Next-Generation Sequence Analyses

(2013) Michael S. Brewer et al.   PLoS One

Auxin controls seed dormancy through stimulation of abscisic acid signaling by inducing ARF-mediated ABI3 activation in Arabidopsis

(2013) X. Liu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prevalence of single nucleotide polymorphism among 27 diverse alfalfa genotypes as assessed by transcriptome sequencing

(2012) Xuehui Li et al.   BMC GENOMICS

Transcriptome characterization and gene expression of Epinephelus spp in endoplasmic reticulum stress-related pathway during betanodavirus infection in vitro

(2012) Ming-Wei Lu et al.   BMC GENOMICS

De novo characterization of the Chinese fir (Cunninghamia lanceolata) transcriptome and analysis of candidate genes involved in cellulose and lignin biosynthesis

(2012) Hua-Hong Huang et al.   BMC GENOMICS

Transcriptome Analysis of the Oriental River Prawn, Macrobrachium nipponense Using 454 Pyrosequencing for Discovery of Genes and Markers

(2012) Keyi Ma et al.   PLoS One

Transcriptome Analysis of Male and Female Sebastiscus marmoratus

(2012) Lingbin Sun et al.   PLoS One

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Genome-wide SNP discovery in tetraploid alfalfa using 454 sequencing and high resolution melting analysis

(2011) Yuanhong Han et al.   BMC GENOMICS

De novo assembly and characterization of the carrot transcriptome reveals novel genes, new markers, and genetic diversity

(2011) Massimo Iorizzo et al.   BMC GENOMICS

Using RNA-Seq for gene identification, polymorphism detection and transcript profiling in two alfalfa genotypes with divergent cell wall composition in stems

(2011) S Samuel Yang et al.   BMC GENOMICS

Deep sequencing of the Camellia sinensis transcriptome revealed candidate genes for major metabolic pathways of tea-specific compounds

(2011) Cheng-Ying Shi et al.   BMC GENOMICS

In silico comparative analysis of SSR markers in plants

(2011) Filipe C Victoria et al.   BMC PLANT BIOLOGY

De Novo Assembly of Chickpea Transcriptome Using Short Reads for Gene Discovery and Marker Identification

(2011) R. Garg et al.   DNA RESEARCH

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

(2011) Chen Xie et al.   NUCLEIC ACIDS RESEARCH

Gene Discovery and Tissue-Specific Transcriptome Analysis in Chickpea with Massively Parallel Pyrosequencing and Web Resource Development

(2011) R. Garg et al.   PLANT PHYSIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Applications of New Sequencing Technologies for Transcriptome Analysis

(2009) Olena Morozova et al.   Annual Review of Genomics and Human Genetics

Photoperiod modifies the diurnal expression profile of VvPHYA and VvPHYB transcripts in field-grown grapevine leaves

(2009) Nathalie Kühn et al.   JOURNAL OF PLANT PHYSIOLOGY

PlnTFDB: updated content and new features of the plant transcription factor database

(2009) Paulino Pérez-Rodríguez et al.   NUCLEIC ACIDS RESEARCH

Legume Transcription Factor Genes: What Makes Legumes So Special?

(2009) M. Libault et al.   PLANT PHYSIOLOGY

Common mechanisms regulate flowering and dormancy

(2009) David Horvath   PLANT SCIENCE

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Transcriptome analysis identifies novel responses and potential regulatory genes involved in seasonal dormancy transitions of leafy spurge (Euphorbia esula L.)

(2008) David P Horvath et al.   BMC GENOMICS

Photoperiod Effect on Phytochrome and Abscisic Acid in Alfalfa Varieties Differing in Fall Dormancy

(2008) Chengzhang Wang et al.   JOURNAL OF PLANT NUTRITION

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

Sequencing and annotation of the evergrowing locus in peach [Prunus persica (L.) Batsch] reveals a cluster of six MADS-box transcription factors as candidate genes for regulation of terminal bud formation

(2008) Douglas Gary Bielenberg et al.   Tree Genetics & Genomes