Field pathogenomics reveals the emergence of a diverse wheat yellow rust population

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

A cloud-compatible bioinformatics pipeline for ultrarapid pathogen identification from next-generation sequencing of clinical samples

(2014) S. N. Naccache et al.   GENOME RESEARCH

Characterization of polyploid wheat genomic diversity using a high-density 90 000 single nucleotide polymorphism array

(2014) Shichen Wang et al.   PLANT BIOTECHNOLOGY JOURNAL

The Genomics of Emerging Pathogens

(2013) Cadhla Firth et al.   Annual Review of Genomics and Human Genetics

Genome analyses of the wheat yellow (stripe) rust pathogen Puccinia striiformis f. sp. tritici reveal polymorphic and haustorial expressed secreted proteins as candidate effectors

(2013) Dario Cantu et al.   BMC GENOMICS

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Hymenoscyphus pseudoalbidus, the causal agent of European ash dieback

(2013) Andrin Gross et al.   MOLECULAR PLANT PATHOLOGY

Wheat stripe (yellow) rust caused byPuccinia striiformisf. sp.tritici

(2013) Wanquan Chen et al.   MOLECULAR PLANT PATHOLOGY

CerealsDB 2.0: an integrated resource for plant breeders and scientists

(2012) Paul A Wilkinson et al.   BMC BIOINFORMATICS

Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat

(2012) Martin Trick et al.   BMC PLANT BIOLOGY

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

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

(2012) Cole Trapnell et al.   Nature Protocols

Transforming clinical microbiology with bacterial genome sequencing

(2012) Xavier Didelot et al.   NATURE REVIEWS GENETICS

Dual RNA-seq of pathogen and host

(2012) Alexander J. Westermann et al.   NATURE REVIEWS MICROBIOLOGY

Isolation of a Novel Coronavirus from a Man with Pneumonia in Saudi Arabia

(2012) Ali M. Zaki et al.   NEW ENGLAND JOURNAL OF MEDICINE

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

The Emergence of Ug99 Races of the Stem Rust Fungus is a Threat to World Wheat Production

(2011) Ravi P. Singh et al.   Annual Review of Phytopathology

International surveillance of wheat rust pathogens: progress and challenges

(2011) Robert Park et al.   EUPHYTICA

Next Generation Sequencing Provides Rapid Access to the Genome of Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust

(2011) Dario Cantu et al.   PLoS One

Influenza Virus Evolution, Host Adaptation, and Pandemic Formation

(2010) Jeffery K. Taubenberger et al.   Cell Host & Microbe

Reduction in the sex ability of worldwide clonal populations of Puccinia striiformis f.sp. tritici

(2010) Sajid Ali et al.   FUNGAL GENETICS AND BIOLOGY

Escalating Threat of Wheat Rusts

(2010) M. S. Hovmoller et al.   SCIENCE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

DnaSP v5: a software for comprehensive analysis of DNA polymorphism data

(2009) P. Librado et al.   BIOINFORMATICS

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

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

Evidence of genetic recombination in wheat yellow rust populations of a Chinese oversummering area

(2009) M. Mboup et al.   FUNGAL GENETICS AND BIOLOGY

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

(2009) Ben Langmead et al.   GENOME BIOLOGY