ReviewFrontiers in molecular biosciences2021
Quantitative Modeling of Protein Synthesis Using Ribosome Profiling Data.
Review in Frontiers in molecular biosciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- HYPK promotes N-terminal protein acetylation through rapid ribosome exchange of NatA.Molecular cell · 2025Article
- Landscape and regulation of mRNA translation in the early C. elegans embryo.Cell reports · 2025Article
- Landscape and regulation of mRNA translation in the earlybioRxiv : the preprint server for biology · 2025Article
- Understanding the regulation of protein synthesis under stress conditions.Biophysical journal · 2024Article
- Ribosome profiling: a powerful tool in oncological research.Biomarker research · 2024Review
- Decoding stoichiometric protein synthesis inBiophysical reports · 2023Article
- Optimization of ribosome utilization inPNAS nexus · 2023Article
- Combinations of slow-translating codon clusters can increase mRNA half-life inProceedings of the National Academy of Sciences of the United States of America · 2021Article
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Authors and funding
4 authors.
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Abstract
Quantitative prediction on protein synthesis requires accurate translation initiation and codon translation rates. Ribosome profiling data, which provide steady-state distribution of relative ribosome occupancies along a transcript, can be used to extract these rate parameters. Various methods have been developed in the past few years to measure translation-initiation and codon translation rates from ribosome profiling data. In the review, we provide a detailed analysis of the key methods employed to extract the translation rate parameters from ribosome profiling data. We further discuss how these approaches were used to decipher the role of various structural and sequence-based features of mRNA molecules in the regulation of gene expression. The utilization of these accurate rate parameters in computational modeling of protein synthesis may provide new insights into the kinetic control of the process of gene expression.
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