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Ribosome Profiling in Trypanosomatids
2019Ribosomes are the machinery responsible for reading mRNAs and translating them into proteins. The ribosome profiling approach is based on high-throughput sequencing of ribosome-protected mRNAs. RNAs not harboring ribosomes are removed by nuclease digestion leaving the so-called ribosome "footprints." The purified "footprint" RNA molecules are processed
Amelie J, Kraus, Raúl O, Cosentino
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Transcriptome-wide measurement of ribosomal occupancy by ribosome profiling
Methods, 2015Gene expression profiling provides a tool to analyze the internal states of cells or organisms, and their responses to perturbations. While global measurements of mRNA levels have thus been widely used for many years, it is only through the recent development of the ribosome profiling technique that an analogous examination of global mRNA translation ...
Aeschimann, F. +4 more
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Exploring Ribosome Positioning on Translating Transcripts with Ribosome Profiling
2016Recent technological advances (e.g., microarrays and massively parallel sequencing) have facilitated genome-wide measurement of many aspects of gene regulation. Ribosome profiling is a high-throughput sequencing method used to measure gene expression at the level of translation.
Pieter, Spealman +4 more
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Choice of Ribonucleases for Ribosome Profiling Experiments
2021In the past 10 years, standard transcriptome sequencing protocols were optimized so well that no prior experience is required to prepare the sequencing library. Often, all enzymatic steps are designed to work in the same reaction tube minimizing handling time and reducing human errors. Ribosome profiling stands out from these methods.
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Illuminating translation with ribosome profiling spectra
Nature Methods, 2016Software based on the spectral analysis of ribosome profiling improves the detection of translated segments in RNA molecules.
Pavel V Baranov, Audrey M Michel
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Ribosome Profiling of Vaccinia Virus-Infected Cells
2019Ribosome profiling is a method that determines genome-wide mRNA translation through measuring ribosome-protected mRNA fragments by deep sequencing. This method can be used to quantify gene expression at the translational level and precisely pinpoint ribosome loading onto mRNA with codon-level resolution.
Yongquan, Lin +2 more
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Genome-Wide Translational Profiling by Ribosome Footprinting
2010We present a detailed protocol for ribosome profiling, an approach that we developed to make comprehensive and quantitative measurements of translation in yeast. In this technique, ribosome positions are determined from their nuclease footprint on their mRNA template and the footprints are quantified by deep sequencing.
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Probing Selenoprotein Translation by Ribosome Profiling
2016Selenoproteins with known functions are oxidoreductase enzymes that serve roles in maintaining cellular redox balance, reproductive health, thyroid hormone metabolism, development, and immune functions. Unique to selenoprotein biosynthesis is the requirement during translation to redefine an in-frame UGA codon to encode for selenocysteine rather than ...
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