Atlasi et al. 2020 (PRJNA552552)

General Details

Title RFP: The translational landscape of ground state pluripotency
Organism
Number of Samples 18
Release Date 2019/07/03 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP212919
ENA SRP212919
GEO GSE133792
BioProject PRJNA552552

Publication

Title
Authors Atlasi Y, Jafarnejad SM, Gkogkas CG, Vermeulen M, Sonenberg N, Stunnenberg HG
Journal Nature communications
Publication Date 2020 Apr 1
Abstract Translational control plays a central role in regulation of gene expression and can lead to significant divergence between mRNA- and protein-abundance. Here, we used genome-wide approaches combined with time-course analysis to measure the mRNA-abundance, mRNA-translation rate and protein expression during the transition of naïve-to-primed mouse embryonic stem cells (ESCs). We find that the ground state ESCs cultured with GSK3-, MEK-inhibitors and LIF (2iL) display higher ribosome density on a selective set of mRNAs. This set of mRNAs undergo strong translational buffering to maintain stable protein expression levels in 2iL-ESCs. Importantly, we show that the global alteration of cellular proteome during the transition of naïve-to-primed pluripotency is largely accompanied by transcriptional rewiring. Thus, we provide a comprehensive and detailed overview of the global changes in gene expression in different states of ESCs and dissect the relative contributions of mRNA-transcription, translation and regulation of protein stability in controlling protein abundance.
PMC PMC7113317
PMID 32238817
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR9641393 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641394 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641395 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641396 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641397 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641398 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641399 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641400 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641401 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641402 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641403 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641404 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641405 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641406 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641407 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641408 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641409 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
SRR9641410 PRJNA552552 Mus musculus E14 Ribo-Seq 0.0
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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