Polymorphism discovery and allele frequency estimation using high-throughput DNA sequencing of target-enriched pooled DNA samples

vipR: variant identification in pooled DNA using R

(2011) A. Altmann et al.   BIOINFORMATICS

RNA-seq: technical variability and sampling

(2011) Lauren M McIntyre et al.   BMC GENOMICS

Invited review: Quantitative trait nucleotide determination in the era of genomic selection

(2011) J.I. Weller et al.   JOURNAL OF DAIRY SCIENCE

Harmful recessive effects on fertility detected by absence of homozygous haplotypes

(2011) P.M. VanRaden et al.   JOURNAL OF DAIRY SCIENCE

Efficient and Cost Effective Population Resequencing by Pooling and In-Solution Hybridization

(2011) Vikas Bansal et al.   PLoS One

Comparison of Three Targeted Enrichment Strategies on the SOLiD Sequencing Platform

(2011) Dale J. Hedges et al.   PLoS One

Genome-wide association mapping for female fertility traits in Danish and Swedish Holstein cattle

(2010) G. Sahana et al.   ANIMAL GENETICS

Associations between newly discovered polymorphisms in the Bos taurusgrowth hormone receptor gene and performance traits in Holstein-Friesian dairy cattle

(2010) S. M. Waters et al.   ANIMAL GENETICS

Design of association studies with pooled or un-pooled next-generation sequencing data

(2010) Su Yeon Kim et al.   GENETIC EPIDEMIOLOGY

Accurate detection and genotyping of SNPs utilizing population sequencing data

(2010) V. Bansal et al.   GENOME RESEARCH

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

(2010) A. McKenna et al.   GENOME RESEARCH

Associations between novel single nucleotide polymorphisms in the Bos taurus growth hormone gene and performance traits in Holstein-Friesian dairy cattle

(2010) M.P. Mullen et al.   JOURNAL OF DAIRY SCIENCE

High-throughput, pooled sequencing identifies mutations in NUBPL and FOXRED1 in human complex I deficiency

(2010) Sarah E Calvo et al.   NATURE GENETICS

Target-enrichment strategies for next-generation sequencing

(2010) Lira Mamanova et al.   NATURE METHODS

Multiplexed DNA Sequence Capture of Mitochondrial Genomes Using PCR Products

(2010) Tomislav Maricic et al.   PLoS One

Identification of the Bovine Arachnomelia Mutation by Massively Parallel Sequencing Implicates Sulfite Oxidase (SUOX) in Bone Development

(2010) Cord Drögemüller et al.   PLoS Genetics

Association analyses of a SNP in the promoter ofIGF1with fat deposition and carcass merit traits in hybrid, Angus and Charolais beef cattle

(2009) K. K. Islam et al.   ANIMAL GENETICS

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

Enabling technologies of genomic-scale sequence enrichment for targeted high-throughput sequencing

(2009) Daniel Summerer   GENOMICS

dbSNP in the detail and copy number complexities

(2009) Ian N.M. Day   HUMAN MUTATION

Somatotropic axis components and nutrient partitioning in genetically diverse dairy cows managed under different feed allowances in a pasture system

(2009) M.C. Lucy et al.   JOURNAL OF DAIRY SCIENCE

Finding the missing heritability of complex diseases

(2009) Teri A. Manolio et al.   NATURE

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing

(2009) Andreas Gnirke et al.   NATURE BIOTECHNOLOGY

Sense from sequence reads: methods for alignment and assembly

(2009) Paul Flicek et al.   NATURE METHODS

Rare Variants of IFIH1, a Gene Implicated in Antiviral Responses, Protect Against Type 1 Diabetes

(2009) S. Nejentsev et al.   SCIENCE

Extent of genome-wide linkage disequilibrium in Australian Holstein-Friesian cattle based on a high-density SNP panel

(2008) Mehar S Khatkar et al.   BMC GENOMICS

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

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