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Open AccessAuthor Correction: Neuronal types in the mouse amygdala and their transcriptional response to fear conditioning
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Article
Open AccessNeuronal types in the mouse amygdala and their transcriptional response to fear conditioning
The amygdala is a brain region primarily associated with emotional response. The use of genetic markers and single-cell transcriptomics can provide insights into behavior-associated cell state changes. Here we...
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Article
Spatial organization of the somatosensory cortex revealed by osmFISH
Global efforts to create a molecular census of the brain using single-cell transcriptomics are producing a large catalog of molecularly defined cell types. However, spatial information is lacking and new metho...
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Article
RNA velocity of single cells
RNA abundance is a powerful indicator of the state of individual cells. Single-cell RNA sequencing can reveal RNA abundance with high quantitative accuracy, sensitivity and throughput1. However, this approach cap...
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Article
Neuronal atlas of the dorsal horn defines its architecture and links sensory input to transcriptional cell types
The dorsal horn of the spinal cord is critical to processing distinct modalities of noxious and innocuous sensation, but little is known of the neuronal subtypes involved, hampering efforts to deduce principle...
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Article
Conserved properties of dentate gyrus neurogenesis across postnatal development revealed by single-cell RNA sequencing
The dentate gyrus of the hippocampus is a brain region in which neurogenesis persists into adulthood; however, the relationship between developmental and adult dentate gyrus neurogenesis has not been examined ...
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Article
Open AccessCombining 16S rRNA gene variable regions enables high-resolution microbial community profiling
Most of our knowledge about the remarkable microbial diversity on Earth comes from sequencing the 16S rRNA gene. The use of next-generation sequencing methods has increased sample number and sequencing depth, ...
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Article
Open AccessSTRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array
Single-cell RNA-seq has become routine for discovering cell types and revealing cellular diversity, but archived human brain samples still pose a challenge to current high-throughput platforms. We present STRT...
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Article
Molecular interrogation of hypothalamic organization reveals distinct dopamine neuronal subtypes
The hypothalamus is a brain region rich in functionally segregated neurons. Here Romanov and colleagues use single-cell RNA sequencing to distinguish 62 neuronal subtypes and define their neuropeptide and neur...
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Article
Integration of electrophysiological recordings with single-cell RNA-seq data identifies neuronal subtypes
Patch-seq reveals new neuronal subtypes by combining electrophysiological and RNA-seq data on single neurons in situ.
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Article
Open AccessIdentification of novel DNA-damage tolerance genes reveals regulation of translesion DNA synthesis by nucleophosmin
Cells cope with replication-blocking lesions via translesion DNA synthesis (TLS). TLS is carried out by low-fidelity DNA polymerases that replicate across lesions, thereby preventing genome instability at the ...
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Article
Open AccessDiurnal suppression of EGFR signalling by glucocorticoids and implications for tumour progression and treatment
Signal transduction by receptor tyrosine kinases (RTKs) and nuclear receptors for steroid hormones is essential for body homeostasis, but the cross-talk between these receptor families is poorly understood. We...
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Article
Quantitative single-cell RNA-seq with unique molecular identifiers
With an optimized protocol and unique molecular identifiers (UMIs) to tag individual transcripts, the mRNA complement of a single cell can be quantified on an absolute scale with almost no amplification bias.
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Chapter and Conference Paper
Accurate Profiling of Microbial Communities from Massively Parallel Sequencing Using Convex Optimization
We describe the Microbial Community Reconstruction (MCR) Problem, which is fundamental for microbiome analysis. In this problem, the goal is to reconstruct the identity and frequency of species comprising a mi...
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Article
Open AccessIntensity dependent estimation of noise in microarrays improves detection of differentially expressed genes
In many microarray experiments, analysis is severely hindered by a major difficulty: the small number of samples for which expression data has been measured. When one searches for differentially expressed gene...
