Analysis of the canine brain transcriptome with an emphasis on the hypothalamus and cerebral cortex

Genetics of prion diseases

(2013) Sarah E Lloyd et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Long Noncoding RNAs: Past, Present, and Future

(2013) J. T. Y. Kung et al.   GENETICS

The genomic signature of dog domestication reveals adaptation to a starch-rich diet

(2013) Erik Axelsson et al.   NATURE

So many doggone traits: mapping genetics of multiple phenotypes in the domestic dog

(2012) M. Rimbault et al.   HUMAN MOLECULAR GENETICS

Diverse biological functions of the SPARC family of proteins

(2012) Amy D. Bradshaw   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Evolutionary genomics of dog domestication

(2012) Robert K. Wayne et al.   MAMMALIAN GENOME

Genomic analyses of modern dog breeds

(2012) Heidi G. Parker   MAMMALIAN GENOME

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease

(2012) Irfan A. Qureshi et al.   NATURE REVIEWS NEUROSCIENCE

Rfam 11.0: 10 years of RNA families

(2012) Sarah W. Burge et al.   NUCLEIC ACIDS RESEARCH

MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data

(2012) Shihao Shen et al.   NUCLEIC ACIDS RESEARCH

Epigenetic Regulation by Long Noncoding RNAs

(2012) J. T. Lee   SCIENCE

Hominoid-Specific De Novo Protein-Coding Genes Originating from Long Non-Coding RNAs

(2012) Chen Xie et al.   PLoS Genetics

A Comparison of Brain Gene Expression Levels in Domesticated and Wild Animals

(2012) Frank W. Albert et al.   PLoS Genetics

Homozygosity Mapping and Candidate Prioritization Identify Mutations, Missed by Whole-Exome Sequencing, in SMOC2, Causing Major Dental Developmental Defects

(2011) Agnès Bloch-Zupan et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Exonization of transposed elements: A challenge and opportunity for evolution

(2011) Jürgen Schmitz et al.   BIOCHIMIE

Sequence comparison of prefrontal cortical brain transcriptome from a tame and an aggressive silver fox (Vulpes vulpes)

(2011) Anna V Kukekova et al.   BMC GENOMICS

Toward understanding dog evolutionary and domestication history

(2011) Francis Galibert et al.   COMPTES RENDUS BIOLOGIES

Annotation of the domestic dog genome sequence: finding the missing genes

(2011) Thomas Derrien et al.   MAMMALIAN GENOME

Human-specific loss of regulatory DNA and the evolution of human-specific traits

(2011) Cory Y. McLean et al.   NATURE

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

g:Profiler—a web server for functional interpretation of gene lists (2011 update)

(2011) Jüri Reimand et al.   NUCLEIC ACIDS RESEARCH

A Compendium of Canine Normal Tissue Gene Expression

(2011) Joseph Briggs et al.   PLoS One

Identification of Genomic Regions Associated with Phenotypic Variation between Dog Breeds using Selection Mapping

(2011) Amaury Vaysse et al.   PLoS Genetics

From RNA-seq reads to differential expression results

(2011) Alicia Oshlack et al.   GENOME BIOLOGY

Man's Best Friend Becomes Biology's Best in Show: Genome Analyses in the Domestic Dog

(2010) Heidi G. Parker et al.   Annual Review of Genetics

Differential gene expression in brain tissues of aggressive and non-aggressive dogs

(2010) Jørn Våge et al.   BMC Veterinary Research

Long non-coding RNAs in nervous system function and disease

(2010) Irfan A. Qureshi et al.   BRAIN RESEARCH

The developmental transcriptome of Drosophila melanogaster

(2010) Brenton R. Graveley et al.   NATURE

Genome-wide SNP and haplotype analyses reveal a rich history underlying dog domestication

(2010) Bridgett M. vonHoldt et al.   NATURE

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Localization of Canine Brachycephaly Using an Across Breed Mapping Approach

(2010) Danika Bannasch et al.   PLoS One

Rmst Is a Novel Marker for the Mouse Ventral Mesencephalic Floor Plate and the Anterior Dorsal Midline Cells

(2010) Christopher W. Uhde et al.   PLoS One

Infernal 1.0: inference of RNA alignments

(2009) E. P. Nawrocki et al.   BIOINFORMATICS

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Revisiting the missing protein-coding gene catalog of the domestic dog

(2009) Thomas Derrien et al.   BMC GENOMICS

Long noncoding RNAs: functional surprises from the RNA world

(2009) J. E. Wilusz et al.   GENES & DEVELOPMENT

An Architectural Role for a Nuclear Noncoding RNA: NEAT1 RNA Is Essential for the Structure of Paraspeckles

(2009) Christine M. Clemson et al.   MOLECULAR CELL

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

(2009) Ahmad M. Khalil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH

Distinctive structures between chimpanzee and humanin a brain noncoding RNA

(2008) A. Beniaminov et al.   RNA

Diverse Splicing Patterns of Exonized Alu Elements in Human Tissues

(2008) Lan Lin et al.   PLoS Genetics