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| Status |
Public on Dec 31, 2018 |
| Title |
RNA-Seq analysis of Sleep deprivation in wildtype and Shank3 mutant mice |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
This dataset constitutes the first RNA-Seq study of gene expression following sleep deprivation in wildtype and Shank3 exon 21 mutant mice
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| Overall design |
20 total samples were analyzed, including wildtype and mutant (Shank3e21-/-) mice. Pre-frontal cortex tissue was collected at 5 hours of sleep deprivation (SD5). Animals that were left to sleep in their homecage were dissected at the same time of day to control for variations due to circadian rhythms (HC5). The protocol was repeated over the course of 5 days to obtain 5 animals per group, so that 5 independent SD experiments were represented in each time point and all animals for each group were dissected at exactly the same time of day.
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| Contributor(s) |
Peixoto L, Roser L, Schoch H, Wintler T |
| Citation(s) |
30973326 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| K01 NS104172 |
Shank3 in Autism and sleep disturbances |
Washington State University |
Lucia Peixoto |
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| Submission date |
Apr 27, 2018 |
| Last update date |
Jul 30, 2024 |
| Contact name |
Lucia Peixoto |
| E-mail(s) |
lucia.peixoto@wsu.edu
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| Phone |
5093686764
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| Organization name |
Washington State University, Spokane
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| Department |
College of Medicine
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| Street address |
PO Box 1495
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| City |
Spokane |
| State/province |
WA |
| ZIP/Postal code |
99224 |
| Country |
USA |
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| Platforms (1) |
| GPL17021 |
Illumina HiSeq 2500 (Mus musculus) |
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| Samples (20)
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| GSM3118997 |
Wildtype homecage control harvested at ZT hour 5, replicate 1 |
| GSM3118998 |
Wildtype homecage control harvested at ZT hour 5, replicate 2 |
| GSM3118999 |
Wildtype homecage control harvested at ZT hour 5, replicate 3 |
| GSM3119000 |
Wildtype homecage control harvested at ZT hour 5, replicate 4 |
| GSM3119001 |
Wildtype homecage control harvested at ZT hour 5, replicate 5 |
| GSM3119002 |
Shank3 mutant homecage control at ZT hour 5, replicate 1 |
| GSM3119003 |
Shank3 mutant homecage control at ZT hour 5, replicate 2 |
| GSM3119004 |
Shank3 mutant homecage control at ZT hour 5, replicate 3 |
| GSM3119005 |
Shank3 mutant homecage control at ZT hour 5, replicate 4 |
| GSM3119006 |
Shank3 mutant homecage control at ZT hour 5, replicate 5 |
| GSM3119007 |
Wildtype harvested following 5 hours of sleep deprivation, replicate 1 |
| GSM3119008 |
Wildtype harvested following 5 hours of sleep deprivation, replicate 2 |
| GSM3119009 |
Wildtype harvested following 5 hours of sleep deprivation, replicate 3 |
| GSM3119010 |
Wildtype harvested following 5 hours of sleep deprivation, replicate 4 |
| GSM3119011 |
Wildtype harvested following 5 hours of sleep deprivation, replicate 5 |
| GSM3119012 |
Shank3 mutant harvested following 5 hours of sleep deprivation, replicate 1 |
| GSM3119013 |
Shank3 mutant harvested following 5 hours of sleep deprivation, replicate 2 |
| GSM3119014 |
Shank3 mutant harvested following 5 hours of sleep deprivation, replicate 3 |
| GSM3119015 |
Shank3 mutant harvested following 5 hours of sleep deprivation, replicate 4 |
| GSM3119016 |
Shank3 mutant harvested following 5 hours of sleep deprivation, replicate 5 |
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| Relations |
| BioProject |
PRJNA453921 |
| SRA |
SRP143453 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE113754_RAW.tar |
3.9 Gb |
(http)(custom) |
TAR (of BEDGRAPH) |
| GSE113754_RNASeq_S3_WT_SD5_HC5_Counts.txt.gz |
824.1 Kb |
(ftp)(http) |
TXT |
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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