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| Status |
Public on Jun 15, 2020 |
| Title |
Gene expression profiling of human DLD-1 cells after block of CRM1 receptor with Leptomycin B inhibitor. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We used RNA-seq approach to define a contribution of mammalian export receptor CRM1 (Chromosomal Maintenance 1 or Exportin 1) into Tpr-dependent export of RNA molecules from the nucleus to the cytoplasm. Basket nucleoporin Tpr was AID-tagged and depleted through Auxin Induced Degradation system. Loss of Tpr led to rapid changes in gene expression profile, and gene expression changes were compared to GANP, NXF1, RanGAP1 (GSE132363) and CRM1 loss and inhibition, respectively. Altogether, we found a minimal subset of RNAs that are controlled both by Tpr nucleoporin and CRM1 receptor.
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| Overall design |
We performed RNA-Seq analyses on human DLD-1 cells that were treated with 200 nM of Leptomycin B (LCLabs, #L-6100) for 3 hours or 1 hour with the following 2 hours of Leptomycin B and 1 mM of auxin treatment for Tpr depletion.
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| Contributor(s) |
Lee H, Aksenova V, Li T, Iben J, Smith A, Echeverria C, Chen S, Esnault C, Arnaoutov A, Dasso M |
| Citation(s) |
32917881 |
| |
| Submission date |
Apr 13, 2020 |
| Last update date |
Sep 16, 2020 |
| Contact name |
Alexei Arnaoutov |
| E-mail(s) |
arnaouta@mail.nih.gov
|
| Organization name |
NICHD
|
| Department |
PCRM
|
| Street address |
49 Convent Dr, Bldg 49 Room 5A10
|
| City |
Bethesda |
| State/province |
MD |
| ZIP/Postal code |
20892 |
| Country |
USA |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (6)
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| GSM4473587 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB_2hr_replicate1 |
| GSM4473588 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB_2hr_replicate2 |
| GSM4473589 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB_2hr_replicate3 |
| GSM4473590 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB.Auxin_2hr_replicate1 |
| GSM4473591 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB.Auxin_2hr_replicate2 |
| GSM4473592 |
DLD-1_AID-NeonGreen-TPR_LeptomycinB.Auxin_2hr_replicate3 |
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| Relations |
| BioProject |
PRJNA625038 |
| SRA |
SRP256274 |
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