Single-cell analysis of experience-dependent transcriptomic states in the mouse visual cortex

Neuronal activity modifies the chromatin accessibility landscape in the adult brain

(2017) Yijing Su et al.   NATURE NEUROSCIENCE

A molecular census of arcuate hypothalamus and median eminence cell types

(2017) John N Campbell et al.   NATURE NEUROSCIENCE

Angiopoietin-2-induced blood–brain barrier compromise and increased stroke size are rescued by VE-PTP-dependent restoration of Tie2 signaling

(2016) Stefanie Gurnik et al.   ACTA NEUROPATHOLOGICA

A Cortical Circuit for Sexually Dimorphic Oxytocin-Dependent Anxiety Behaviors

(2016) Kun Li et al.   CELL

Mapping of Brain Activity by Automated Volume Analysis of Immediate Early Genes

(2016) Nicolas Renier et al.   CELL

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

(2016) Karthik Shekhar et al.   CELL

Autocrine BDNF–TrkB signalling within a single dendritic spine

(2016) Stephen C. Harward et al.   NATURE

Sensory experience regulates cortical inhibition by inducing IGF1 in VIP neurons

(2016) A. R. Mardinly et al.   NATURE

Cerebral cavernous malformations arise from endothelial gain of MEKK3–KLF2/4 signalling

(2016) Zinan Zhou et al.   NATURE

Adult mouse cortical cell taxonomy revealed by single cell transcriptomics

(2016) Bosiljka Tasic et al.   NATURE NEUROSCIENCE

Single-cell barcoding and sequencing using droplet microfluidics

(2016) Rapolas Zilionis et al.   Nature Protocols

Oligodendrocyte heterogeneity in the mouse juvenile and adult central nervous system

(2016) S. Marques et al.   SCIENCE

Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons

(2016) Naomi Habib et al.   SCIENCE

Cellular Taxonomy of the Mouse Striatum as Revealed by Single-Cell RNA-Seq

(2016) Ozgun Gokce et al.   Cell Reports

A Single-Cell Transcriptomic Map of the Human and Mouse Pancreas Reveals Inter- and Intra-cell Population Structure

(2016) Maayan Baron et al.   Cell Systems

Droplet Barcoding for Single-Cell Transcriptomics Applied to Embryonic Stem Cells

(2015) Allon M. Klein et al.   CELL

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

Neuronal activity biases axon selection for myelination in vivo

(2015) Jacob H Hines et al.   NATURE NEUROSCIENCE

The neocortical circuit: themes and variations

(2015) Kenneth D Harris et al.   NATURE NEUROSCIENCE

Cerebellin 4, a synaptic protein, enhances inhibitory activity and resistance of neurons to amyloid-β toxicity

(2015) Pedro J. Chacón et al.   NEUROBIOLOGY OF AGING

limma powers differential expression analyses for RNA-sequencing and microarray studies

(2015) Matthew E. Ritchie et al.   NUCLEIC ACIDS RESEARCH

Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

(2015) A. Zeisel et al.   SCIENCE

A draft network of ligand–receptor-mediated multicellular signalling in human

(2015) Jordan A. Ramilowski et al.   Nature Communications

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Npas4 Regulates Excitatory-Inhibitory Balance within Neural Circuits through Cell-Type-Specific Gene Programs

(2014) Ivo Spiegel et al.   CELL

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Sensory-Related Neural Activity Regulates the Structure of Vascular Networks in the Cerebral Cortex

(2014) Baptiste Lacoste et al.   NEURON

Neuronal Activity Promotes Oligodendrogenesis and Adaptive Myelination in the Mammalian Brain

(2014) E. M. Gibson et al.   SCIENCE

Clustering by fast search and find of density peaks

(2014) A. Rodriguez et al.   SCIENCE

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

(2013) Y. Liao et al.   BIOINFORMATICS

Advances in Analysis of Low Signal-to-Noise Images Link Dynamin and AP2 to the Functions of an Endocytic Checkpoint

(2013) François Aguet et al.   DEVELOPMENTAL CELL

Endothelial SRF/MRTF ablation causes vascular disease phenotypes in murine retinae

(2013) Christine Weinl et al.   JOURNAL OF CLINICAL INVESTIGATION

Quantitative single-cell RNA-seq with unique molecular identifiers

(2013) Saiful Islam et al.   NATURE METHODS

Nuclear calcium signalling in the regulation of brain function

(2013) Hilmar Bading   NATURE REVIEWS NEUROSCIENCE

Activation of CRH receptor type 1 expressed on glutamatergic neurons increases excitability of CA1 pyramidal neurons by the modulation of voltage-gated ion channels

(2013) Stephan Kratzer et al.   Frontiers in Cellular Neuroscience

Endothelial cell expression of haemoglobin α regulates nitric oxide signalling

(2012) Adam C. Straub et al.   NATURE

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

Networks of Neuronal Genes Affected by Common and Rare Variants in Autism Spectrum Disorders

(2012) Eyal Ben-David et al.   PLoS Genetics

New views of Arc, a master regulator of synaptic plasticity

(2011) Jason D Shepherd et al.   NATURE NEUROSCIENCE

Glial and neuronal control of brain blood flow

(2010) David Attwell et al.   NATURE

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

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

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

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

Control of vascular morphogenesis and homeostasis through the angiopoietin–Tie system

(2009) Hellmut G. Augustin et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Parallel processing strategies of the primate visual system

(2009) Jonathan J. Nassi et al.   NATURE REVIEWS NEUROSCIENCE

Highly Selective Receptive Fields in Mouse Visual Cortex

(2008) C. M. Niell et al.   JOURNAL OF NEUROSCIENCE

Activity-dependent regulation of inhibitory synapse development by Npas4

(2008) Yingxi Lin et al.   NATURE

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH