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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 ...
Florian Aeschimann +2 more
exaly +5 more sources
Exploring Ribosome-Positioning on Translating Transcripts with Ribosome Profiling
2021The emergence of ribosome profiling as a tool for measuring the translatome has provided researchers with valuable insights into the post-transcriptional regulation of gene expression. Despite the biological insights and technical improvements made since the technique was initially described by Ingolia et al. (Science 324(5924):218-223, 2009), ribosome
Alexander L, Cope +5 more
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2017
Ribosome profiling (also known as Ribo-seq) provides a genome-wide, high-resolution, and quantitative accounting of mRNA segments that are occupied by ribosomes in vivo. The method has been used to address numerous questions in bacteria, yeast, and metazoa, but its application to questions in plant biology is just beginning.
Prakitchai, Chotewutmontri +3 more
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Ribosome profiling (also known as Ribo-seq) provides a genome-wide, high-resolution, and quantitative accounting of mRNA segments that are occupied by ribosomes in vivo. The method has been used to address numerous questions in bacteria, yeast, and metazoa, but its application to questions in plant biology is just beginning.
Prakitchai, Chotewutmontri +3 more
openaire +2 more sources
Tissue-Specific Ribosome Profiling in Drosophila
2021Robust mechanisms exist that serve to dynamically regulate the translation of mRNA into proteins across heterogeneous tissues. These processes ensure timely generation of proteins in quantities that scale with the demands of specific cell types.
Xun, Chen, Dion, Dickman
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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 translation by ribosome profiling
Methods, 2017 Translation is one of the fundamental processes of life. It comprises the assembly of polypeptides whose amino acid sequence corresponds to the codon sequence of an mRNA's ORF. Translation is performed by the ribosome; therefore, in order to understand translation and its regulation we must be able to determine the numbers and locations of ribosomes on
Nicholas Ingolia, Nicholas McGlincy
exaly +5 more sources
2016
In the last decade gene expression profiling by microarrays (Brown and Botstein 1999), and more recently by RNA-Seq (Mortazavi et al. 2008), has become one of the most important and widely used tools of molecular biology. However, recent studies have shown that mRNA levels only imperfectly correlate with protein levels (Vogel et al.
Zupanic, Anze +1 more
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In the last decade gene expression profiling by microarrays (Brown and Botstein 1999), and more recently by RNA-Seq (Mortazavi et al. 2008), has become one of the most important and widely used tools of molecular biology. However, recent studies have shown that mRNA levels only imperfectly correlate with protein levels (Vogel et al.
Zupanic, Anze +1 more
openaire +2 more sources
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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