Haas et al. 2020 (PRJNA576260)
General Details
| Title | Analysis of PDCD4 knockdown effects by high throughput sequencing of a human epithelial cell line |
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| Organism | |
| Number of Samples | 6 |
| Release Date | 2019/10/07 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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| Visit GWIPS-viz |
Repository Details
| SRA | SRP224660 |
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| ENA | SRP224660 |
| GEO | GSE138533 |
| BioProject | PRJNA576260 |
Publication
| Title | |
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| Authors | Haas A,Nilges BS,Leidel SA,Klempnauer KH |
| Journal | Scientific reports |
| Publication Date | 2020 Feb 17 |
| Abstract | PDCD4, the protein encoded by the tumor suppressor gene PDCD4 (programmed cell death 4) has been implicated in the control of cellular transcription and translation by modulating the activity of specific transcription factors and suppressing the translation of mRNAs with structured 5'-UTRs. Most studies of human PDCD4 have employed tumor cell lines, possibly resulting in a biased picture of its role in normal cells. Here, we have studied the function of PDCD4 in a telomerase-immortalized human epithelial cell line. We show for the first time that PDCD4 is required for the G1/S-transition, demonstrating its crucial role in the cell cycle. Inhibition of p53-dependent activation of p21 WAF1/CIP1 overrides the requirement for PDCD4 for the G1/S-transition, suggesting that PDCD4 counteracts basal p53 activity to prevent activation of the G1/S checkpoint by p53. Transcriptome and ribosome profiling data show that silencing of PDCD4 changes the expression levels and translation of many mRNAs, providing an unbiased view of the cellular processes that are affected by PDCD4 in an epithelial cell line. Our data identify PDCD4 as a key regulator of cell cycle- and DNA-related functions that are inhibited when it is silenced, suggesting that decreased expression of PDCD4 might contribute to tumor development by compromising genomic integrity. |
| PMC | PMC7026441 |
| PMID | 32066800 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| SRR10240641 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq |  |
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| SRR10240642 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq | |
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| SRR10240643 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq | |
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| SRR10240644 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq | |
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| SRR10240645 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq | |
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| SRR10240646 | PRJNA576260 | Homo sapiens | hTERT-immortalized retinal pigment epithelial cell line | Ribo-Seq | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) |
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