ArticleeLife2019
Single-cell transcriptomes and whole-brain projections of serotonin neurons in the mouse dorsal and median raphe nuclei.
Article in eLife, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 170 papers.
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Who cites it
170 citing papers in PubMed, 321 citations in OpenAlex.
- Effects of SSRIs on the spatial transcriptome of dorsal raphe serotonin neurons.Molecular psychiatry · 2026Article
- System-level synchronization and subtype-specific modules govern brain-wide serotonin axon innervation.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Decoding the serotonin-alcohol crosstalk: the role of central serotonergic dysregulation in alcohol use disorder.Pharmacological reports : PR · 2026Review
- Topographically organized dorsal raphe activity modulates forebrain sensory-motor representations and contributes to defensive behaviors.Nature communications · 2026Article
- Neurodevelopmental effects of early life stress: PFC and cognition.Neuroscience and biobehavioral reviews · 2026Review
- Leptin alleviates obesity hypoventilationbioRxiv : the preprint server for biology · 2026Article
- Deconstructing a behavioral state: parallel neural integrators control distinct features of an aversive behavioral state inbioRxiv : the preprint server for biology · 2026Article
- Cognitive engagement induces area-specific fingerprints of dopamine, acetylcholine, serotonin, glutamate and GABA in prefrontal cortex and striatum.bioRxiv : the preprint server for biology · 2026Article
- Modern Mining: The Role of Single-cell RNA Sequencing in Advancing Neuroscience Research.BioEssays : news and reviews in molecular, cellular and developmental biology · 2026Review
- Roles of synaptic cell adhesion molecules in the neuromodulatory systems.Molecules and cells · 2026Review
- Optogenetic Strategies for Motor Recovery After Ischemic Stroke: Mechanisms and Therapeutic Implications.Cellular and molecular neurobiology · 2026Review
- Distribution and subacute modulation of endocannabinoid metabolizing enzymes in the trigeminal complex and midbrain in a pre-clinical model of post-traumatic headache.The journal of headache and pain · 2026Article
- Robust serotonin activation of the kisspeptin GnRH pulse generator in male and female mice.Endocrinology · 2026Article
- Shared and divergent alteration of whole-brain connectivity and sensory deficits in multiple autism mouse models.Molecular psychiatry · 2026Article
- Early life chronic stress-disrupted activity of the dorsal raphe nucleus selectively drives behavioral impairments.Communications biology · 2026Article
- Rapid dynamics of dorsal raphe serotonin neurons regulate the strength of visual attention.Nature communications · 2026Article
- Synchronous activation of striatal cholinergic interneurons induces local serotonin release.Nature communications · 2026Article
- The lateral habenula as a master regulator of innate and learned social behaviors.Psychopharmacology · 2026Review
- Serotonin modulates nucleus accumbens circuits to suppress aggression in mice.Nature communications · 2026Article
- Causal links between serotonin dynamics and cued fear learning: evidence from experimental studies.Frontiers in computational neuroscience · 2026Review
110 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
17 authors at 6 institutions in 2 countries.
Funding
Abstract
Serotonin neurons of the dorsal and median raphe nuclei (DR, MR) collectively innervate the entire forebrain and midbrain, modulating diverse physiology and behavior. To gain a fundamental understanding of their molecular heterogeneity, we used plate-based single-cell RNA-sequencing to generate a comprehensive dataset comprising eleven transcriptomically distinct serotonin neuron clusters. Systematic in situ hybridization mapped specific clusters to the principal DR, caudal DR, or MR. These transcriptomic clusters differentially express a rich repertoire of neuropeptides, receptors, ion channels, and transcription factors. We generated novel intersectional viral-genetic tools to access specific subpopulations. Whole-brain axonal projection mapping revealed that DR serotonin neurons co-expressing vesicular glutamate transporter-3 preferentially innervate the cortex, whereas those co-expressing thyrotropin-releasing hormone innervate subcortical regions in particular the hypothalamus. Reconstruction of 50 individual DR serotonin neurons revealed diverse and segregated axonal projection patterns at the single-cell level. Together, these results provide a molecular foundation of the heterogenous serotonin neuronal phenotypes.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.