|
| Status |
Public on May 05, 2020 |
| Title |
RNAseq profiling of Aire and Ctr-transfected HEK293 cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Aire-sensitive genes exhibit short 3'UTR transcript isoform preference in Aire and Ctr-transfected HEK293 cells
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| |
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| Overall design |
HEK293 cells were transfected with the pCMV-Aire-Flag plasmid (or the control empty plasmid) using the TransIT-293 transfection reagent (Mirus) for 48 hours. CLP1 knockdown was performed by lentivirus infection of CLP1-specific shRNAs (sh2 and sh3). Total RNA isolated by Trizol extraction was used to generate poly-A-selected transcriptome libraries using the non-directionnal TruSeq V3 RNA Sample Prep Kit (without additional pre-amplification) following the manufacturer's protocols. Single-end (50 bp) sequencing was performed using the Illumina HiSeq2000 machine. Single-end (75bp) reads generated by the Illumina NextSeq 500 machine (lentivirus infected samples) were truncated to 50 bp.
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| |
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| Contributor(s) |
Giraud M, Jmari N, Padonou F |
| Citation(s) |
32338592 |
| |
| Submission date |
Nov 20, 2019 |
| Last update date |
Jun 07, 2021 |
| Contact name |
Matthieu Giraud |
| E-mail(s) |
matthieu.giraud@inserm.fr
|
| Organization name |
INSERM _ Université de Nantes
|
| Department |
CRTI
|
| Street address |
30 bd Jean Monnet
|
| City |
Nantes |
| ZIP/Postal code |
44000 |
| Country |
France |
| |
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| Platforms (2) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
|
| Samples (6)
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|
| Relations |
| BioProject |
PRJNA590718 |
| SRA |
SRP230800 |
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