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| Status |
Public on Aug 04, 2023 |
| Title |
Post-transcriptional regulation of Ribosome Biogenesis during differentiation [dRNA-seq] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Ribosome biogenesis is a critical component of cell differentiation. Ribosome synthesis has been previously reported to be highly regulated at the transcriptional level, but less is known about its post-transcriptional regulation. Poly(A) tail length regulation is a hallmark of post-transcriptional regulation associated with transcript stability. Here we monitor poly(A) tail length changes at a transcriptome level during P19 differentiation. We found that poly(A) tail shortening occurs during cell differentiation only for transcript encoding for ribosomal proteins. These findings suggest a strong post-transcriptional regulation of ribosome biogenesis during differentiation.
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| Overall design |
P19 cells were differentiated for 6 days into neuron-like cells. RNA was collected before differentiation (D0) and two (D2), four (D4), and six (D6) days after the initiation of differentiation. Direct RNA seq libraries were prepared in triplicates for each timepoint and run on a Nanopore Minion device. Reads were mapped to the mouse transcriptome, and their poly(A) tail length was determined. This information was then used to monitor the changes in transcript abundance and poly(A) tail length during differentiation.
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| Contributor(s) |
Baptissart M, Papas BN, Morgan M |
| Citation(s) |
37636056 |
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| Submission date |
Oct 05, 2022 |
| Last update date |
Sep 14, 2023 |
| Contact name |
Marcos Morgan |
| Organization name |
NIEHS
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| Street address |
111 TW Alexander Dr
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| City |
Durham |
| ZIP/Postal code |
27709 |
| Country |
USA |
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| Platforms (1) |
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| Samples (12)
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| GSM6617132 |
P19 cells, D2, rep 1 |
| GSM6617133 |
P19 cells, D2, rep 2 |
| GSM6617134 |
P19 cells, D2, rep 3 |
| GSM6617135 |
P19 cells, D4, rep 1 |
| GSM6617136 |
P19 cells, D4, rep 2 |
| GSM6617137 |
P19 cells, D4, rep 3 |
| GSM6617138 |
P19 cells, D6, rep 1 |
| GSM6617139 |
P19 cells, D6, rep 2 |
| GSM6617140 |
P19 cells, D6, rep 3 |
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| This SubSeries is part of SuperSeries: |
| GSE214875 |
Post-transcriptional regulation of Ribosome Biogenesis during differentiation |
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| Relations |
| BioProject |
PRJNA887439 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE214874_DESeq2_annotated_all.csv.gz |
513.3 Kb |
(ftp)(http) |
CSV |
| GSE214874_master.polya.tsv.gz |
281.9 Mb |
(ftp)(http) |
TSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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