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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Aug 06, 2019 |
| Title |
Molecular and anatomical organization of the dorsal raphe nucleus |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
The dorsal raphe nucleus (DRN) is an important source of neuromodulators and has been implicated in a wide variety of behavioral and neurological disorders. The DRN is subdivided into distinct anatomical subregions comprised of multiple cell types, and its complex cellular organization has impeded efforts to investigate the distinct circuit and behavioral functions of its subdomains. Here we used single-cell RNA sequencing, in situ hybridization, anatomical tracing, and spatial correlation analysis to map the transcriptional and spatial profiles of cells from the mouse DRN. Our analysis of 39,411 single-cell transcriptomes revealed at least 18 distinct neuron subtypes and 5 serotonergic neuron subtypes with distinct molecular and anatomical properties, including a serotonergic neuron subtype that preferentially innervates the basal ganglia. Our study lays out the molecular organization of distinct serotonergic and non-serotonergic subsystems, and will facilitate the design of strategies for further dissection the DRN and its diverse functions.
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| Overall design |
Single cell RNA sequencing of live dissociated cells (unsorted) from mouse brain tissue containing the dorsal raphe nucleus using the inDrops v3 platform.
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| Contributor(s) |
Huang K, Sabatini BL |
| Citation(s) |
31411560, 32265666 |
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| Submission date |
Jul 11, 2019 |
| Last update date |
Apr 13, 2020 |
| Contact name |
Kee Wui Huang |
| E-mail(s) |
keewuihuang@g.harvard.edu
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| Organization name |
Harvard Medical School
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| Department |
Neurobiology
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| Lab |
Sabatini Lab
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| Street address |
200 Longwood Ave, WAB 347
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| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02115 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (12)
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| GSM3938211 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 1 |
| GSM3938212 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 2 |
| GSM3938213 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 3 |
| GSM3938214 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 4 |
| GSM3938215 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 5 |
| GSM3938216 |
Dorsal Raphe Nucleus, Control, Batch 1, Set 6 |
| GSM3938217 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 1 |
| GSM3938218 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 2 |
| GSM3938219 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 3 |
| GSM3938220 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 4 |
| GSM3938221 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 5 |
| GSM3938222 |
Dorsal Raphe Nucleus, Control, Batch 2, Set 6 |
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| Relations |
| BioProject |
PRJNA554121 |
| SRA |
SRP214304 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE134163_RAW.tar |
513.6 Mb |
(http)(custom) |
TAR (of TSV) |
| GSE134163_README.xls |
54.0 Kb |
(ftp)(http) |
XLS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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