Clarifying Omics Concepts, Challenges, and Opportunities for Prunus Breeding in the Postgenomic Era

Chemical Constituents of the Genus Prunus and their Medicinal Properties

(2012) V. Poonam et al.   CURRENT MEDICINAL CHEMISTRY

Nuclear DNA amounts in angiosperms: targets, trends and tomorrow

(2011) M. D. Bennett et al.   ANNALS OF BOTANY

On origin of genetic code and tRNA before translation

(2011) Andrei S Rodin et al.   Biology Direct

Optimizing de novo transcriptome assembly from short-read RNA-Seq data: a comparative study

(2011) Qiong-Yi Zhao et al.   BMC BIOINFORMATICS

GC-Content Normalization for RNA-Seq Data

(2011) Davide Risso et al.   BMC BIOINFORMATICS

The noncoding universe

(2011) Kester Jarvis et al.   BMC BIOLOGY

Comparative analysis of rosaceous genomes and the reconstruction of a putative ancestral genome for the family

(2011) Eudald Illa et al.   BMC EVOLUTIONARY BIOLOGY

Whole genome sequencing of peach (Prunus persica L.) for SNP identification and selection

(2011) Riaz Ahmad 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

New approaches to Prunus transcriptome analysis

(2011) Pedro Martínez-Gómez et al.   GENETICA

Measurements of genomic GC content in plant genomes with flow cytometry: a test for reliability

(2011) Petr Šmarda et al.   NEW PHYTOLOGIST

Sequencing crop genomes: approaches and applications

(2011) Scott A. Jackson et al.   NEW PHYTOLOGIST

Histone modifications and expression of DAM6 gene in peach are modulated during bud dormancy release in a cultivar-dependent manner

(2011) Carmen Leida et al.   NEW PHYTOLOGIST

Bioinformatics and Data-Intensive Scientific Discovery in the Beginning of the 21st Century

(2011) Roger Barga et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Advances in Omics and Bioinformatics Tools for Systems Analyses of Plant Functions

(2011) K. Mochida et al.   PLANT AND CELL PHYSIOLOGY

Silencing of Soybean Seed Storage Proteins Results in a Rebalanced Protein Composition Preserving Seed Protein Content without Major Collateral Changes in the Metabolome and Transcriptome

(2011) M. A. Schmidt et al.   PLANT PHYSIOLOGY

Metabolic Profiling during Peach Fruit Development and Ripening Reveals the Metabolic Networks That Underpin Each Developmental Stage

(2011) V. A. Lombardo et al.   PLANT PHYSIOLOGY

Detection and Removal of Biases in the Analysis of Next-Generation Sequencing Reads

(2011) Schraga Schwartz et al.   PLoS One

The Reality of Pervasive Transcription

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

Plant Breeding: A Success Story to be Continued Thanks to the Advances in Genomics

(2011) Jaime Prohens   Frontiers in Plant Science

Improving RNA-Seq expression estimates by correcting for fragment bias

(2011) Adam Roberts et al.   GENOME BIOLOGY

Mitochondrial DNA, chloroplast DNA and the origins of development in eukaryotic organisms

(2010) Arnold J Bendich   Biology Direct

Construction of an almond linkage map in an Australian population Nonpareil × Lauranne

(2010) Iraj Tavassolian et al.   BMC GENOMICS

Alternative splicing: global insights

(2010) Martina Hallegger et al.   FEBS Journal

Grand Challenge Commentary: RNA epigenetics?

(2010) Chuan He   Nature Chemical Biology

Phenomics: the next challenge

(2010) David Houle et al.   NATURE REVIEWS GENETICS

Association genetics of complex traits in plants

(2010) Pär K. Ingvarsson et al.   NEW PHYTOLOGIST

Biases in Illumina transcriptome sequencing caused by random hexamer priming

(2010) Kasper D. Hansen et al.   NUCLEIC ACIDS RESEARCH

A Vision for 21st Century U.S. Policy to Support Sustainable Advancement of Scientific Discovery and Technological Innovation

(2010) Eugene Kolker   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

Silencing of Plum pox virus 5′UTR/P1 sequence confers resistance to a wide range of PPV strains

(2010) Elisa Di Nicola-Negri et al.   PLANT CELL REPORTS

High throughput DNA sequencing: The new sequencing revolution

(2010) Michel Delseny et al.   PLANT SCIENCE

Protein Networks Reveal Detection Bias and Species Consistency When Analysed by Information-Theoretic Methods

(2010) Luis P. Fernandes et al.   PLoS One

Whole genome transcriptome analysis

(2010) Alistair R.R. Forrest et al.   RNA Biology

Synteny of Prunus and other model plant species

(2009) Sook Jung et al.   BMC GENOMICS

Development and bin mapping of a Rosaceae Conserved Ortholog Set (COS) of markers

(2009) Antonio Cabrera et al.   BMC GENOMICS

Selection of reliable reference genes for gene expression studies in peach using real-time PCR

(2009) Zhaoguo Tong et al.   BMC MOLECULAR BIOLOGY

De novo sequencing of plant genomes using second-generation technologies

(2009) M. Imelfort et al.   BRIEFINGS IN BIOINFORMATICS

RNA-seq: from technology to biology

(2009) Samuel Marguerat et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Correlation of mRNA and protein in complex biological samples

(2009) Tobias Maier et al.   FEBS LETTERS

Current-generation high-throughput sequencing: deepening insights into mammalian transcriptomes

(2009) B. J. Blencowe et al.   GENES & DEVELOPMENT

The complex eukaryotic transcriptome: unexpected pervasive transcription and novel small RNAs

(2009) Alain Jacquier   NATURE REVIEWS GENETICS

Plant genome sequencing: applications for crop improvement

(2009) David Edwards et al.   PLANT BIOTECHNOLOGY JOURNAL

Proteomic analysis of temperature stress in plants

(2009) Karlie A. Neilson et al.   PROTEOMICS

Defining genes: a computational framework

(2009) Peter F. Stadler et al.   THEORY IN BIOSCIENCES

Splign: algorithms for computing spliced alignments with identification of paralogs

(2008) Yuri Kapustin et al.   Biology Direct

Linkage disequilibrium, genetic association mapping and gene localization in crop plants

(2008) Karim Sorkheh et al.   GENETICS AND MOLECULAR BIOLOGY

Transcriptome profiling of ripening nectarine (Prunus persica L. Batsch) fruit treated with 1-MCP

(2008) Fiorenza Ziliotto et al.   JOURNAL OF EXPERIMENTAL BOTANY

Next-generation DNA sequencing

(2008) Jay Shendure et al.   NATURE BIOTECHNOLOGY

Digging deep with RNA-Seq

(2008) Louisa Flintoft   NATURE REVIEWS GENETICS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH

Multiple Models for Rosaceae Genomics

(2008) V. Shulaev et al.   PLANT PHYSIOLOGY

Phenome connections

(2008) Martin Oti et al.   TRENDS IN GENETICS

The impact of next-generation sequencing technology on genetics

(2008) Elaine R. Mardis   TRENDS IN GENETICS

Genetic Variation in an Individual Human Exome

(2008) Pauline C. Ng et al.   PLoS Genetics

Marker-assisted selection: an approach for precision plant breeding in the twenty-first century

(2007) B. C.Y Collard et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES