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| Status |
Public on Sep 09, 2021 |
| Title |
A Clock-Driven Neural Network Critical for Arousal |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Purpose: scRNA-Seq was performed to profile hypothalamic mWake+ cells of male at 7 weeks old
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| Overall design |
The hypothalamus of mWake-tdTomato-Cre mice (male, 7 weeks old) were dissociated using modified Act-Seq protocol and flow-sorted to enrich tdTomato+ cells. A small aliquot of flow-sorted cells were labelled with DAPI and counted under the microscope (99% tdTomato+ cells). Cells were loaded into V3.0 10x Genomics Chromium Single Cell system, and 3 libraries (triplicates) were sequenced on Illumina NextSeq 500 with ~150 million reads per library. Sequencing results were processed with 10x Genomics pipeline. Seurat V3 was used in conjunction with Monocle3 to perform downstream analysis.
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| Contributor(s) |
Bell B, Kim DW, Blackshaw S, Wu M |
| Citation(s) |
33140455, 37821426 |
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| Submission date |
Mar 02, 2020 |
| Last update date |
Oct 25, 2023 |
| Contact name |
Mark Wu |
| E-mail(s) |
marknwu@jhmi.edu
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| Organization name |
Johns Hopkins University
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| Street address |
855 N. Wolfe Street
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| City |
Baltimore |
| ZIP/Postal code |
21205 |
| Country |
USA |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (3) |
| GSM4367467 |
mWake tdTomato+ cells, scRNA-Seq - Replicate 1 (BB4) |
| GSM4367468 |
mWake tdTomato+ cells, scRNA-Seq - Replicate 2 (BB5) |
| GSM4367469 |
mWake tdTomato+ cells, scRNA-Seq - Replicate 3 (BB6) |
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| Relations |
| BioProject |
PRJNA609641 |
| SRA |
SRP251229 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE146166_RAW.tar |
16.4 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
| GSE146166_mWake_Neurons.rds.gz |
11.6 Kb |
(ftp)(http) |
RDS |
| GSE146166_mWake_Neurons_matrix.rds.gz |
8.2 Mb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
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