The sequenced rat brain transcriptome - its use in identifying networks predisposing alcohol consumption

Genomic landscape of rat strain and substrain variation

(2015) Roel Hermsen et al.   BMC GENOMICS

The “Gray Area” of Consumption Between Moderate and Risk Drinking*

(2015) Deborah A. Dawson et al.   Journal of Studies on Alcohol and Drugs

Is the Alcohol Deprivation Effect Genetically Mediated? Studies with HXB/BXH Recombinant Inbred Rat Strains

(2014) Lauren A. Vanderlinden et al.   ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH

Microglial dysfunction in brain aging and Alzheimer's disease

(2014) Kira Irving Mosher et al.   BIOCHEMICAL PHARMACOLOGY

Inflamed moods: A review of the interactions between inflammation and mood disorders

(2014) Joshua D. Rosenblat et al.   PROGRESS IN NEURO-PSYCHOPHARMACOLOGY & BIOLOGICAL PSYCHIATRY

A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages

(2014) Ying Yu et al.   Nature Communications

Gene expression within the extended amygdala of 5 pairs of rat lines selectively bred for high or low ethanol consumption

(2013) William J. McBride et al.   ALCOHOL

Stress–response pathways are altered in the hippocampus of chronic alcoholics

(2013) Jeanette N. McClintick et al.   ALCOHOL

Genome Sequencing Reveals Loci under Artificial Selection that Underlie Disease Phenotypes in the Laboratory Rat

(2013) Santosh S. Atanur et al.   CELL

Neuroimmune signaling: a key component of alcohol abuse

(2013) Jody Mayfield et al.   CURRENT OPINION IN NEUROBIOLOGY

A meta-analysis of two genome-wide association studies to identify novel loci for maximum number of alcoholic drinks

(2013) Manav Kapoor et al.   HUMAN GENETICS

Increased brain uptake and oxidation of acetate in heavy drinkers

(2013) Lihong Jiang et al.   JOURNAL OF CLINICAL INVESTIGATION

Alcohol-induced IL-1β in the brain is mediated by NLRP3/ASC inflammasome activation that amplifies neuroinflammation

(2013) Dora Lippai et al.   JOURNAL OF LEUKOCYTE BIOLOGY

The Specific α-Neurexin Interactor Calsyntenin-3 Promotes Excitatory and Inhibitory Synapse Development

(2013) Katherine L. Pettem et al.   NEURON

Proteomic analysis of the NOS2 interactome in human airway epithelial cells

(2013) Matthew W. Foster et al.   NITRIC OXIDE-BIOLOGY AND CHEMISTRY

Whole Brain and Brain Regional Coexpression Network Interactions Associated with Predisposition to Alcohol Consumption

(2013) Lauren A. Vanderlinden et al.   PLoS One

Leptin resistance is a secondary consequence of the obesity in ciliopathy mutant mice

(2013) N. F. Berbari et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Molecular Basis of Tubulin Transport Within the Cilium by IFT74 and IFT81

(2013) S. Bhogaraju et al.   SCIENCE

Neuron-glia crosstalk in health and disease: fractalkine and CX3CR1 take centre stage

(2013) G. K. Sheridan et al.   Open Biology

TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

(2013) Daehwan Kim et al.   GENOME BIOLOGY

Integration of disease-specific single nucleotide polymorphisms, expression quantitative trait loci and coexpression networks reveal novel candidate genes for type 2 diabetes

(2012) H. P. Kang et al.   DIABETOLOGIA

Modulation of Inflammatory Cytokines and Mitogen-activated Protein Kinases by Acetate in Primary Astrocytes

(2012) Mahmoud L. Soliman et al.   Journal of Neuroimmune Pharmacology

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

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

(2012) Cole Trapnell et al.   Nature Protocols

Acute alcohol intoxication decreases glucose metabolism but increases acetate uptake in the human brain

(2012) Nora D. Volkow et al.   NEUROIMAGE

Animal models for medications development targeting alcohol abuse using selectively bred rat lines: Neurobiological and pharmacological validity

(2012) Richard L. Bell et al.   PHARMACOLOGY BIOCHEMISTRY AND BEHAVIOR

Gene expression in the ventral tegmental area of 5 pairs of rat lines selectively bred for high or low ethanol consumption

(2012) William J. McBride et al.   PHARMACOLOGY BIOCHEMISTRY AND BEHAVIOR

Extracellular Ca2+ is a danger signal activating the NLRP3 inflammasome through G protein-coupled calcium sensing receptors

(2012) Manuela Rossol et al.   Nature Communications

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

Strategies for aggregating gene expression data: The collapseRows R function

(2011) Jeremy A Miller et al.   BMC BIOINFORMATICS

Activation of inflammatory signaling by lipopolysaccharide produces a prolonged increase of voluntary alcohol intake in mice

(2011) Y.A. Blednov et al.   BRAIN BEHAVIOR AND IMMUNITY

Induction of innate immune genes in brain create the neurobiology of addiction

(2011) F.T. Crews et al.   BRAIN BEHAVIOR AND IMMUNITY

Inhibition of RNase L and RNA-dependent Protein Kinase (PKR) by Sunitinib Impairs Antiviral Innate Immunity

(2011) Babal Kant Jha et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Neuron-glia interactions in glutamatergic neurotransmission: Roles of oxidative and glycolytic adenosine triphosphate as energy source

(2011) A. Schousboe et al.   JOURNAL OF NEUROSCIENCE RESEARCH

Orai channel-dependent activation of phospholipase C-δ: a novel mechanism for the effects of calcium entry on calcium oscillations

(2011) Jill L. Thompson et al.   JOURNAL OF PHYSIOLOGY-LONDON

Activation and Regulation of Purinergic P2X Receptor Channels

(2011) C. Coddou et al.   PHARMACOLOGICAL REVIEWS

A comparison of selected quantitative trait loci associated with alcohol use phenotypes in humans and mouse models

(2010) Cindy L. Ehlers et al.   ADDICTION BIOLOGY

The Relationship Between Genetic Influences on Alcohol Dependence and on Patterns of Alcohol Consumption

(2010) Kenneth S. Kendler et al.   ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH

Identification of Signaling Pathways Regulating Primary Cilium Length and Flow-Mediated Adaptation

(2010) Tatiana Y. Besschetnova et al.   CURRENT BIOLOGY

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

A systems genetic analysis of alcohol drinking by mice, rats and men: Influence of brain GABAergic transmission

(2010) Laura M. Saba et al.   NEUROPHARMACOLOGY

Alterations in Brain Glucose Utilization Accompanying Elevations in Blood Ethanol and Acetate Concentrations in the Rat

(2009) Robert J. Pawlosky et al.   ALCOHOLISM-CLINICAL AND EXPERIMENTAL RESEARCH

Alcohol Consumption Indices of Genetic Risk for Alcohol Dependence

(2009) Julia D. Grant et al.   BIOLOGICAL PSYCHIATRY

Genetical genomic determinants of alcohol consumption in rats and humans

(2009) Boris Tabakoff et al.   BMC BIOLOGY

Fbxo45, a Novel Ubiquitin Ligase, Regulates Synaptic Activity

(2009) Hirobumi Tada et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Mechanisms underlying fibronectin-induced up-regulation of P2X4R expression in microglia: distinct roles of PI3K-Akt and MEK-ERK signalling pathways

(2009) Makoto Tsuda et al.   JOURNAL OF CELLULAR AND MOLECULAR MEDICINE

Glutamine-dependent anapleurosis dictates glucose uptake and cell growth by regulating MondoA transcriptional activity

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

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

Type 2 Transglutaminase in Neurodegenerative Diseases: The Mitochondrial Connection

(2008) Mauro Piacentini et al.   CURRENT PHARMACEUTICAL DESIGN

Increased systemic and brain cytokine production and neuroinflammation by endotoxin following ethanol treatment

(2008) Liya Qin et al.   Journal of Neuroinflammation

The genomic determinants of alcohol preference in mice

(2008) Boris Tabakoff et al.   MAMMALIAN GENOME

Genetics of gene expression and its effect on disease

(2008) Valur Emilsson et al.   NATURE

SNP and haplotype mapping for genetic analysis in the rat

(2008) Kathrin Saar et al.   NATURE GENETICS

Functional organization of the transcriptome in human brain

(2008) Michael C Oldham et al.   NATURE NEUROSCIENCE