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| Status |
Public on Aug 31, 2022 |
| Title |
Transcriptome profiling by RNA-sequencing of the AML cell line U937. |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
All-trans retinoic acid (ATRA, RA) has powerful activity in APL; its efficacy in non-APL AML is still unclear, but may be boosted by epigenetic drugs such azanucleoside DNMT inhibitors (Blagitko-Dorfs et al. PLoS ONE 2013). In a randomized phase II study (DECIDER trial, NCT00867672) the addition of RA to decitabine (DAC) in newly diagnosed non-fit older AML patients resulted in a clinically meaningful extension of survival. We hypothesize that in vitro, the add-on of RA to DAC results in cooperative transcriptome changes (possibly associated with demethylation), which may explain at least in part this clinical result.
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| Overall design |
The AML cell line U937 was treated with decitabine (DAC) ± ATRA in technical triplicates for 3 consecutive days (with daily change of media and DAC add-on). Cells were harvested and RNA was isolated after 72 hours, Fragment analysis by TapeStation confirmed RQN values ≥9.7. rRNA was removed and strand-specific libraries of each replicate were sequenced on an Illumina HiSeq 2500 with approximately 40 million reads per sample.
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| Contributor(s) |
Meier R, Greve G, Zimmer D, Berberich B, Niemöller C, Lipka D, Lübbert M |
| Citation(s) |
35995769 |
| Submission date |
Sep 17, 2021 |
| Last update date |
Aug 31, 2022 |
| Contact name |
Gabriele Greve |
| E-mail(s) |
gabriele.greve@uniklinik-freiburg.de
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| Organization name |
University of Freiburg Medical Center
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| Department |
Department of Internal Medicine 1
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| Lab |
Division of Hematology, Oncology and SCT, Lab Prof. Michael Lübbert
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| Street address |
Hugstetter Str 55
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| City |
Freiburg |
| ZIP/Postal code |
79106 |
| Country |
Germany |
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| Platforms (1) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA764066 |
| SRA |
SRP337597 |
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