MassIVE MSV000096514

Partial Public PXD058242

Multi-omic assessment of mRNA translation dynamics in liver cancer cell lines

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Description

Translation is the process by which genetic information from mRNA is decoded to produce proteins. Since mRNA levels alone do not predict protein amounts accurately, understanding translational control is essential. Ribosome profiling revealed that translation initiation is the main rate-limiting step, with rates varying up to 100-fold across mRNAs, while elongation rates vary less (~20-fold). Furthermore, only a small fraction of the variation in translation rates is explained by known determinants, indicating that much remains to be understood in the prediction of protein outputs of individual mRNAs. Current machine learning models would benefit from more data on endogenous mRNAs. To address this, here we report steady-state and dynamic multi-omics data from human liver cancer cell lines, specifically i) ribosome profiling of unperturbed cells and following translation initiation block to trace elongation (run-off ribosome profiling), ii) protein synthesis rates estimated by pulsed stable isotope labeled amino acids in cell culture (pSILAC), and iii) mean ribosome load on individual mRNAs determined by mRNA sequencing of polysome fractions (polysome profiling). Predicting protein output from mRNAs is crucial for applications like protein expression engineering or mRNA vaccine designing. [doi:10.25345/C55X25R02] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: SWATH ; DIA ; pSILAC ; mRNA ; polysome profiling ; DatasetType:Proteomics

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Principal Investigators:
(in alphabetical order) 		Alexander Schmidt, Biozentrum, Universtiy of Basel, 4056 Basel, Switzerland, N/A
Submitting User: trendsetter
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Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

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