Mixed-species RNA-seq for elucidation of non-cell-autonomous control of gene transcription

TimeTree: A Resource for Timelines, Timetrees, and Divergence Times

(2017) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Neurotoxic reactive astrocytes are induced by activated microglia

(2017) Shane A. Liddelow et al.   NATURE

Microglia emerge as central players in brain disease

(2017) Michael W Salter et al.   NATURE MEDICINE

Salmon provides fast and bias-aware quantification of transcript expression

(2017) Rob Patro et al.   NATURE METHODS

Hallmarks of Alzheimer’s Disease in Stem-Cell-Derived Human Neurons Transplanted into Mouse Brain

(2017) Ira Espuny-Camacho et al.   NEURON

Neurons and neuronal activity control gene expression in astrocytes to regulate their development and metabolism

(2017) Philip Hasel et al.   Nature Communications

RNA in extracellular vesicles

(2017) Kyoung Mi Kim et al.   Wiley Interdisciplinary Reviews-RNA

Adaptive regulation of the brain’s antioxidant defences by neurons and astrocytes

(2016) Paul S. Baxter et al.   FREE RADICAL BIOLOGY AND MEDICINE

Linking early-life NMDAR hypofunction and oxidative stress in schizophrenia pathogenesis

(2016) Giles E. Hardingham et al.   NATURE REVIEWS NEUROSCIENCE

Evidence for evolutionary divergence of activity-dependent gene expression in developing neurons

(2016) Jing Qiu et al.   eLife

Sambamba: fast processing of NGS alignment formats

(2015) Artem Tarasov et al.   BIOINFORMATICS

Synaptic vesicle release regulates myelin sheath number of individual oligodendrocytes in vivo

(2015) Sigrid Mensch et al.   NATURE NEUROSCIENCE

Ensembl 2016

(2015) Andrew Yates et al.   NUCLEIC ACIDS RESEARCH

Microglia Function in Central Nervous System Development and Plasticity

(2015) Dorothy P. Schafer et al.   Cold Spring Harbor Perspectives in Biology

Synaptic NMDA receptor activity is coupled to the transcriptional control of the glutathione system

(2015) Paul S. Baxter et al.   Nature Communications

Microglial priming in neurodegenerative disease

(2014) V. Hugh Perry et al.   Nature Reviews Neurology

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

Human iPSC-Derived Oligodendrocyte Progenitor Cells Can Myelinate and Rescue a Mouse Model of Congenital Hypomyelination

(2013) Su Wang et al.   Cell Stem Cell

Forebrain Engraftment by Human Glial Progenitor Cells Enhances Synaptic Plasticity and Learning in Adult Mice

(2013) Xiaoning Han et al.   Cell Stem Cell

M2 microglia and macrophages drive oligodendrocyte differentiation during CNS remyelination

(2013) Veronique E Miron et al.   NATURE NEUROSCIENCE

Count-based differential expression analysis of RNA sequencing data using R and Bioconductor

(2013) Simon Anders et al.   Nature Protocols

Emerging roles of astrocytes in neural circuit development

(2013) Laura E. Clarke et al.   NATURE REVIEWS NEUROSCIENCE

Xenome--a tool for classifying reads from xenograft samples

(2012) T. Conway et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

PGC-1  Negatively Regulates Extrasynaptic NMDAR Activity and Excitotoxicity

(2012) C. Puddifoot et al.   JOURNAL OF NEUROSCIENCE

Astrocyte glypicans 4 and 6 promote formation of excitatory synapses via GluA1 AMPA receptors

(2012) Nicola J. Allen et al.   NATURE

TCN 201 selectively blocks GluN2A-containing NMDARs in a GluN1 co-agonist dependent but non-competitive manner

(2012) S. Edman et al.   NEUROPHARMACOLOGY

Activation and Control of CNS Innate Immune Responses in Health and Diseases: A Balancing Act Finely Tuned by Neuroimmune Regulators (NIReg)

(2011) Jean-Jacques Hoarau et al.   CNS & Neurological Disorders-Drug Targets

The influence of synaptic activity on neuronal health

(2011) Karen FS Bell et al.   CURRENT OPINION IN NEUROBIOLOGY

Pituitary adenylate cyclase-activating peptide induces long-lasting neuroprotection through the induction of activity-dependent signaling via the cyclic AMP response element-binding protein-regulated transcription co-activator 1

(2011) Paul S. Baxter et al.   JOURNAL OF NEUROCHEMISTRY

Cell Type-Specific Transcriptomics in the Brain

(2011) B. W. Okaty et al.   JOURNAL OF NEUROSCIENCE

A Quantitative Comparison of Cell-Type-Specific Microarray Gene Expression Profiling Methods in the Mouse Brain

(2011) Benjamin W. Okaty et al.   PLoS One

Neuronal Activity-Regulated Gene Transcription in Synapse Development and Cognitive Function

(2011) A. E. West et al.   Cold Spring Harbor Perspectives in Biology

CNS Peroxiredoxins and Their Regulation in Health and Disease

(2010) Karen F.S. Bell et al.   ANTIOXIDANTS & REDOX SIGNALING

Regulation of Neuronal Oxidative and Nitrosative Stress by Endogenous Protective Pathways and Disease Processes

(2010) Giles E. Hardingham et al.   ANTIOXIDANTS & REDOX SIGNALING

In vivo CHI3L1 (YKL-40) expression in astrocytes in acute and chronic neurological diseases

(2010) Dafna Bonneh-Barkay et al.   Journal of Neuroinflammation

Defining transcribed regions using RNA-seq

(2010) Brian T Wilhelm et al.   Nature Protocols

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Application of a Translational Profiling Approach for the Comparative Analysis of CNS Cell Types

(2008) Joseph P. Doyle et al.   CELL