|
| Status |
Public on May 05, 2016 |
| Title |
Transcriptomic comparison of Drosophila snRNP biogenesis mutants reveals mutant-specific changes in pre-mRNA processing: implications for Spinal Muscular Atrophy |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
RNA-seq analysis of Drosophila snRNP biogenesis mutants.
In brief, the Phax and Ars2 mutant RNA-seq was used in combination with Series GSE49587 (Smn mutant and wild-type Oregon-R RNA-seq) to classify transcriptome changes as snRNP-dependent or mutant specific. Additional flies with Smn transgenes, containing Smn mutations that cause Spinal Muscular Atrophy (SMA) in humans, were then used to determine whether the snRNP-dependent or mutant specific changes were present in intermediate models of SMA.
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| |
|
| Overall design |
RNA-seq of total and polyA-RNA from whole larvae of snRNP biogenesis mutants and total RNA from whole prepupae of Smn point mutants (SMA-causing mutations).
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| |
|
| Contributor(s) |
Garcia EL, Matera AG, Praveen K |
| Citation(s) |
27268418, 35920767, 38664795 |
| |
| Submission date |
May 04, 2016 |
| Last update date |
May 10, 2024 |
| Contact name |
Eric L Garcia |
| E-mail(s) |
[email protected]
|
| Organization name |
University of North Carolina at Chapel Hill
|
| Department |
Lineberger Comprehensive Cancer Center
|
| Lab |
Greg Matera
|
| Street address |
3344 Genome Science Bldg
|
| City |
Chapel Hill |
| State/province |
NC |
| ZIP/Postal code |
27599 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
|
| Samples (20)
|
| GSM2143235 |
Phax mutant polyA-RNA-seq biol rep2 |
| GSM2143236 |
Ars2 mutant total-RNA-seq biol rep 1 |
| GSM2143237 |
Ars2 mutant total-RNA-seq biol rep 2 |
| GSM2143238 |
wild type total-RNA-seq biol rep 1 |
| GSM2143239 |
wild-type total-RNA-seq biol rep 2 |
| GSM2143240 |
Phax mutant total-RNA-seq biol rep 1 |
| GSM2143241 |
Phax mutant total-RNA-seq biol rep2 |
| GSM2143242 |
Smn mutant total-RNA-seq biol rep 1 |
| GSM2143243 |
Smn mutant total-RNA-seq biol rep 2 |
| GSM2143244 |
Smn wild-type transgene total-RNA-seq biol rep 1 |
| GSM2143245 |
Smn wild-type transgene total-RNA-seq biol rep 2 |
| GSM2143246 |
Smn V72G transgene total-RNA-seq biol rep 1 |
| GSM2143247 |
Smn V72G transgene total-RNA-seq biol rep 2 |
| GSM2143248 |
Smn Y107C transgene total-RNA-seq biol rep 1 |
| GSM2143249 |
Smn Y107C transgene total-RNA-seq biol rep 2 |
| GSM2143250 |
Smn T205I transgene total-RNA-seq biol rep 1 |
| GSM2143251 |
Smn T205I transgene total-RNA-seq biol rep 2 |
|
| Relations |
| BioProject |
PRJNA320641 |
| SRA |
SRP074381 |
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