Eliseeva et al. 2024 (PRJNA1051101)
General Details
| Title | Changes in transcriptome and translatome upon YB-1 or YB-3 expression in double knockout HEK293T ΔYB-1ΔYB-3 cells |
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| Organism | |
| Number of Samples | 38 |
| Release Date | 2023/12/11 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP477353 |
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| ENA | SRP477353 |
| GEO | GSE249895 |
| BioProject | PRJNA1051101 |
Publication
| Title | |
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| Authors | Eliseeva IA,Buyan AI,Smolin EA,Kaliadzenka KS,Popov S,Kulakovskiy IV,Lyabin DN |
| Journal | International journal of molecular sciences |
| Publication Date | 2024 Feb 1 |
| Abstract | Y-box-binding proteins (YB proteins) are multifunctional DNA- and RNA-binding proteins that play an important role in the regulation of gene expression. The high homology of their cold shock domains and the similarity between their long, unstructured C-terminal domains suggest that Y-box-binding proteins may have similar functions in a cell. Here, we consider the functional interchangeability of the somatic YB proteins YB-1 and YB-3. RNA-seq and Ribo-seq are used to track changes in the mRNA abundance or mRNA translation in HEK293T cells solely expressing YB-1, YB-3, or neither of them. We show that YB proteins have a dual effect on translation. Although the expression of YB proteins stimulates global translation, YB-1 and YB-3 inhibit the translation of their direct CLIP-identified mRNA targets. The impact of YB-1 and YB-3 on the translation of their mRNA targets is similar, which suggests that they can substitute each other in inhibiting the translation of their mRNA targets in HEK293T cells. |
| PMC | PMC10855678 |
| PMID | 38339016 |
| 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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| SRR27177562 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq |  |
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| SRR27177545 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177546 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177560 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177561 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177558 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177559 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177556 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177557 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177547 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177548 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177552 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177553 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177549 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177550 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177543 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177544 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177541 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177542 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177539 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177540 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177535 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177536 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177533 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177531 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177532 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177529 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177530 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177527 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177528 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177554 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177555 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177525 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177526 | PRJNA1051101 | Homo sapiens | HEK293 | RNA-Seq | |
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| SRR27177524 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177522 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177520 | PRJNA1051101 | Homo sapiens | HEK293 | Ribo-Seq | |
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| SRR27177521 | PRJNA1051101 | Homo sapiens | HEK293 | 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) |
ⓘ For more Information on the columns shown here see: About