Annotation of the Protein Coding Regions of the Equine Genome

Comparison of the Equine Reference Sequence with Its Sanger Source Data and New Illumina Reads

(2015) Jovan Rebolledo-Mendez et al.   PLoS One

Next generation sequencing gives an insight into the characteristics of highly selected breeds versus non-breed horses in the course of domestication

(2014) Julia Metzger et al.   BMC GENOMICS

Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

(2013) Ludovic Orlando et al.   NATURE

Conserved Regulation of Cardiac Calcium Uptake by Peptides Encoded in Small Open Reading Frames

(2013) E. G. Magny et al.   SCIENCE

Whole-Genome sequencing and genetic variant analysis of a quarter Horse mare

(2012) Ryan Doan et al.   BMC GENOMICS

ArrayExpress update—trends in database growth and links to data analysis tools

(2012) Gabriella Rustici et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2013

(2012) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

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

(2011) Mark A DePristo et al.   NATURE GENETICS

Fibronectins, Their Fibrillogenesis, and In Vivo Functions

(2011) J. E. Schwarzbauer et al.   Cold Spring Harbor Perspectives in Biology

Hundreds of putatively functional small open reading frames in Drosophila

(2011) Emmanuel Ladoukakis et al.   GENOME BIOLOGY

Structural annotation of equine protein-coding genes determined by mRNA sequencing

(2010) S. J. Coleman et al.   ANIMAL GENETICS

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

(2010) A. McKenna et al.   GENOME RESEARCH

Characterizing the Embryonic Transcriptome of the Snail Ilyanassa

(2010) J. D. Lambert et al.   INTEGRATIVE AND COMPARATIVE BIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Tissue-specific transcript annotation and expression profiling with complementary next-generation sequencing technologies

(2010) Matthew S. Hestand et al.   NUCLEIC ACIDS RESEARCH

MapSplice: Accurate mapping of RNA-seq reads for splice junction discovery

(2010) Kai Wang et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: update 2011

(2010) P. A. Fujita et al.   NUCLEIC ACIDS RESEARCH

mRNA-Seq whole-transcriptome analysis of a single cell

(2009) Fuchou Tang et al.   NATURE METHODS

Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

(2009) C. M. Wade et al.   SCIENCE

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

(2009) Ben Langmead et al.   GENOME BIOLOGY