Genome-wide single nucleotide polymorphism and Insertion-Deletion discovery through next-generation sequencing of reduced representation libraries in common bean

Gene-Based Single Nucleotide Polymorphism Markers for Genetic and Association Mapping in Common Bean

(2012) Carlos H Galeano et al.   BMC GENETICS

High-Throughput SNP Discovery and Genotyping for Constructing a Saturated Linkage Map of Chickpea (Cicer arietinum L.)

(2012) R. Gaur et al.   DNA RESEARCH

A Single Point Mutation in GmHMA3 Affects Cadimum (Cd) Translocation and Accumulation in Soybean Seeds

(2012) Yi Wang et al.   Molecular Plant

Comparative population genomics of maize domestication and improvement

(2012) Matthew B Hufford et al.   NATURE GENETICS

Genome-wide DNA polymorphisms in eliteindicarice inbreds discovered by whole-genome sequencing

(2012) Gopala K. Subbaiyan et al.   PLANT BIOTECHNOLOGY JOURNAL

Single nucleotide polymorphism discovery from wheat next-generation sequence data

(2012) Kaitao Lai et al.   PLANT BIOTECHNOLOGY JOURNAL

Mesoamerican origin of the common bean (Phaseolus vulgaris L.) is revealed by sequence data

(2012) E. Bitocchi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A high-throughput SNP marker system for parental polymorphism screening, and diversity analysis in common bean (Phaseolus vulgaris L.)

(2012) Matthew W. Blair et al.   THEORETICAL AND APPLIED GENETICS

Single-nucleotide polymorphism discovery by high-throughput sequencing in sorghum

(2011) James C Nelson et al.   BMC GENOMICS

Annotation-based genome-wide SNP discovery in the large and complex Aegilops tauschii genome using next-generation sequencing without a reference genome sequence

(2011) Frank M You et al.   BMC GENOMICS

Model SNP development for complex genomes based on hexaploid oat using high-throughput 454 sequencing technology

(2011) Rebekah E Oliver et al.   BMC GENOMICS

Association mapping of common bacterial blight resistance QTL in Ontario bean breeding populations

(2011) Chun Shi et al.   BMC PLANT BIOLOGY

Investigation of the domestication of common bean (Phaseolus vulgaris) using multilocus sequence data

(2011) Sujan Mamidi et al.   FUNCTIONAL PLANT BIOLOGY

Single nucleotide polymorphism discovery in common bean

(2011) Thiago Lívio P. O. Souza et al.   MOLECULAR BREEDING

Developing genomic resources in two Linum species via 454 pyrosequencing and genomic reduction

(2011) YONG-BI FU et al.   Molecular Ecology Resources

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Genotype and SNP calling from next-generation sequencing data

(2011) Rasmus Nielsen et al.   NATURE REVIEWS GENETICS

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

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

Discovery of Genome-Wide DNA Polymorphisms in a Landrace Cultivar of Japonica Rice by Whole-Genome Sequencing

(2011) Yuko Arai-Kichise et al.   PLANT AND CELL PHYSIOLOGY

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

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

Calling SNPs without a reference sequence

(2010) Aakrosh Ratan et al.   BMC BIOINFORMATICS

SNP discovery by high-throughput sequencing in soybean

(2010) Xiaolei Wu et al.   BMC GENOMICS

High-throughput SNP discovery through deep resequencing of a reduced representation library to anchor and orient scaffolds in the soybean whole genome sequence

(2010) David L Hyten et al.   BMC GENOMICS

High-throughput SNP discovery and assay development in common bean

(2010) David L Hyten et al.   BMC GENOMICS

Cytogenetic map of common bean (Phaseolus vulgaris L.)

(2010) Artur Fonsêca et al.   CHROMOSOME RESEARCH

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Genome sequence of the palaeopolyploid soybean

(2010) Jeremy Schmutz et al.   NATURE

Genome-wide patterns of genetic variation among elite maize inbred lines

(2010) Jinsheng Lai et al.   NATURE GENETICS

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

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

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

Syntenic relationships among legumes revealed using a gene-based genetic linkage map of common bean (Phaseolus vulgaris L.)

(2010) Melody McConnell et al.   THEORETICAL AND APPLIED GENETICS

Single-Nucleotide Polymorphism Genotyping in Mapping Populations via Genomic Reduction and Next-Generation Sequencing: Proof of Concept

(2010) Peter J. Maughan et al.   Plant Genome

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Single strand conformation polymorphism based SNP and Indel markers for genetic mapping and synteny analysis of common bean (Phaseolus vulgaris L.)

(2009) Carlos H Galeano et al.   BMC GENOMICS

Utilization of next-generation sequencing platforms in plant genomics and genetic variant discovery

(2009) Stéphane Deschamps et al.   MOLECULAR BREEDING

Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

(2009) K. L. McNally et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Next-generation sequencing technologies and their implications for crop genetics and breeding

(2009) Rajeev K. Varshney et al.   TRENDS IN BIOTECHNOLOGY

Sequencing of natural strains of Arabidopsis thaliana with short reads

(2008) S. Ossowski et al.   GENOME RESEARCH

Next-generation DNA sequencing

(2008) Jay Shendure et al.   NATURE BIOTECHNOLOGY

Whole-genome sequencing and variant discovery in C. elegans

(2008) LaDeana W Hillier et al.   NATURE METHODS

SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries

(2008) Curtis P Van Tassell et al.   NATURE METHODS

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

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

Single Nucleotide Polymorphisms in Common Bean: Their Discovery and Genotyping Using a Multiplex Detection System

(2008) E. Gaitán-Solís et al.   Plant Genome