Genome-wide association study with imputed whole-genome sequence variants including large deletions for female fertility in 3 Nordic dairy cattle breeds

Multi-population GWAS and enrichment analyses reveal novel genomic regions and promising candidate genes underlying bovine milk fatty acid composition

(2019) G. Gebreyesus et al.   BMC GENOMICS

g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update)

(2019) Uku Raudvere et al.   NUCLEIC ACIDS RESEARCH

A resource-efficient tool for mixed model association analysis of large-scale data

(2019) Longda Jiang et al.   NATURE GENETICS

Joint imputation of whole-genome sequence variants and large chromosomal deletions in cattle

(2019) Md Mesbah-Uddin et al.   JOURNAL OF DAIRY SCIENCE

Genome-wide association study for milking speed in French Holstein cows

(2018) Andrew Marete et al.   JOURNAL OF DAIRY SCIENCE

Association analysis for udder index and milking speed with imputed whole-genome sequence variants in Nordic Holstein cattle

(2018) Júlia Gazzoni Jardim et al.   JOURNAL OF DAIRY SCIENCE

Meta-analysis of genome-wide association studies for cattle stature identifies common genes that regulate body size in mammals

(2018) Aniek C. Bouwman et al.   NATURE GENETICS

Prioritizing candidate genes post-GWAS using multiple sources of data for mastitis resistance in dairy cattle

(2018) Zexi Cai et al.   BMC GENOMICS

Ensembl 2018

(2017) Daniel R Zerbino et al.   NUCLEIC ACIDS RESEARCH

Genotype Imputation with Millions of Reference Samples

(2016) Brian L. Browning et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Genome-wide association analysis of milk yield traits in Nordic Red Cattle using imputed whole genome sequence variants

(2016) T. Iso-Touru et al.   BMC GENETICS

Next-generation genotype imputation service and methods

(2016) Sayantan Das et al.   NATURE GENETICS

Using Sequence Variants in Linkage Disequilibrium with Causative Mutations to Improve Across-Breed Prediction in Dairy Cattle: A Simulation Study

(2016) Irene van den Berg et al.   G3-Genes Genomes Genetics

Identification of genomic regions associated with female fertility in Danish Jersey using whole genome sequence data

(2015) Johanna K. Höglund et al.   BMC GENETICS

Genome-wide association study for female fertility in Nordic Red cattle

(2015) Johanna K. Höglund et al.   BMC GENETICS

Genetic dissection of milk yield traits and mastitis resistance quantitative trait loci on chromosome 20 in dairy cattle1

(2015) Naveen K. Kadri et al.   JOURNAL OF DAIRY SCIENCE

Quantitative trait loci markers derived from whole genome sequence data increases the reliability of genomic prediction

(2015) R.F. Brøndum et al.   JOURNAL OF DAIRY SCIENCE

Bovine Genome Database: new tools for gleaning function from theBos taurusgenome

(2015) Christine G. Elsik et al.   NUCLEIC ACIDS RESEARCH

Developmental progress and current status of the Animal QTLdb

(2015) Zhi-Liang Hu et al.   NUCLEIC ACIDS RESEARCH

Validation of associations for female fertility traits in Nordic Holstein, Nordic Red and Jersey dairy cattle

(2014) Johanna K Höglund et al.   BMC GENETICS

Strategies for imputation to whole genome sequence using a single or multi-breed reference population in cattle

(2014) Rasmus Brøndum et al.   BMC GENOMICS

Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle

(2014) Hans D Daetwyler et al.   NATURE GENETICS

Integrating sequence and array data to create an improved 1000 Genomes Project haplotype reference panel

(2014) Olivier Delaneau et al.   Nature Communications

A 660-Kb Deletion with Antagonistic Effects on Fertility and Milk Production Segregates at High Frequency in Nordic Red Cattle: Additional Evidence for the Common Occurrence of Balancing Selection in Livestock

(2014) Naveen Kumar Kadri et al.   PLoS Genetics

Haplotype Estimation Using Sequencing Reads

(2013) Olivier Delaneau et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Conditional and joint multiple-SNP analysis of GWAS summary statistics identifies additional variants influencing complex traits

(2012) Jian Yang et al.   NATURE GENETICS

A Deletion in the Bovine FANCI Gene Compromises Fertility by Causing Fetal Death and Brachyspina

(2012) Carole Charlier et al.   PLoS One

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

Genomic inflation factors under polygenic inheritance

(2011) Jian Yang et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Discovery and genotyping of genome structural polymorphism by sequencing on a population scale

(2011) Robert E Handsaker et al.   NATURE GENETICS

GCTA: A Tool for Genome-wide Complex Trait Analysis

(2010) Jian Yang et al.   AMERICAN JOURNAL OF HUMAN GENETICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

A whole-genome assembly of the domestic cow, Bos taurus

(2009) Aleksey V Zimin et al.   GENOME BIOLOGY

Linkage Disequilibrium and Persistence of Phase in Holstein-Friesian, Jersey and Angus Cattle

(2008) A. P. W. de Roos et al.   GENETICS