SNPMeta: SNP annotation and SNP metadata collection without a reference genome

Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars

(2013) C. R. Cavanagh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Comparative Analyses Identify the Contributions of Exotic Donors to Disease Resistance in a Barley Experimental Population

(2013) Zhou Fang et al.   G3-Genes Genomes Genetics

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

(2012) Pablo Cingolani et al.   FLY

Properties and Power of the Drosophila Synthetic Population Resource for the Routine Dissection of Complex Traits

(2012) Elizabeth G. King et al.   GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two-Enzyme Genotyping-by-Sequencing Approach

(2012) Jesse A. Poland et al.   PLoS One

The Hordeum Toolbox: The Barley Coordinated Agricultural Project Genotype and Phenotype Resource

(2012) Victoria C. Blake et al.   Plant Genome

Progress towards a reference genome for sunflower

(2011) N.C. Kane et al.   Botany

Multiplexed shotgun genotyping for rapid and efficient genetic mapping

(2011) P. Andolfatto et al.   GENOME RESEARCH

Genome-wide genetic marker discovery and genotyping using next-generation sequencing

(2011) John W. Davey et al.   NATURE REVIEWS GENETICS

FlyBase 101 - the basics of navigating FlyBase

(2011) P. McQuilton et al.   NUCLEIC ACIDS RESEARCH

Unlocking the Barley Genome by Chromosomal and Comparative Genomics

(2011) Klaus F.X. Mayer et al.   PLANT CELL

Comprehensive Sequence Analysis of 24,783 Barley Full-Length cDNAs Derived from 12 Clone Libraries

(2011) T. Matsumoto et al.   PLANT PHYSIOLOGY

A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species

(2011) Robert J. Elshire et al.   PLoS One

Effective Population Size Is Positively Correlated with Levels of Adaptive Divergence among Annual Sunflowers

(2010) J. L. Strasburg et al.   MOLECULAR BIOLOGY AND EVOLUTION

ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data

(2010) K. Wang et al.   NUCLEIC ACIDS RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Development and implementation of high-throughput SNP genotyping in barley

(2009) Timothy J Close et al.   BMC GENOMICS

Development of 5006 Full-Length CDNAs in Barley: A Tool for Accessing Cereal Genomics Resources

(2009) K. Sato et al.   DNA RESEARCH

The 1001 Genomes Project for Arabidopsis thaliana

(2009) Detlef Weigel et al.   GENOME BIOLOGY

Divergence Times in Caenorhabditis and Drosophila Inferred from Direct Estimates of the Neutral Mutation Rate

(2008) A. D. Cutter   MOLECULAR BIOLOGY AND EVOLUTION

McKusick's Online Mendelian Inheritance in Man (OMIM(R))

(2008) J. Amberger et al.   NUCLEIC ACIDS RESEARCH

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One

Acc homoeoloci and the evolution of wheat genomes

(2008) D. Chalupska et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA