Results 131 to 140 of about 136,643 (153)
TRAINSPOTTER: profiling nascent protein N-termini indicative of bacterial translation initiation via deformylation-assisted N-terminomics. [PDF]
Nucleic Acids ResVan Damme P.
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Suppression of upstream ORF translation is not a widespread mechanism of translational stimulation by yeast helicase Ded1. [PDF]
Nucleic Acids ResKumar R +4 more
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Beyond Read-Counts: Ribo-seq Data Analysis to Understand the Functions of the Transcriptome
Trends in Genetics, 2017 By mapping the positions of millions of translating ribosomes in the cell, ribosome profiling (Ribo-seq) has established its role as a powerful tool to study gene expression. Several laboratories have introduced modifications to the experimental protocol and expanded the repertoire of biochemical methods to study translation transcriptome-wide. However,
Lorenzo Calviello, Uwe Ohler
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A Ribo-Seq Method to Study Genome-Wide Translational Regulation in Plants
Methods in Molecular Biology, 2022Protein production from mRNA is one of the fundamental molecular processes in a cell. Accurate genome-wide information on the levels of translation and ribosome distribution on mRNA can be gathered by carrying out ribosome footprinting, aka Ribo-seq.
JOSÉ M Alonso +2 more
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Journal of Genetics and Genomics
Translation is a crucial step in gene expression. Over the past decade, the development and application of ribosome profiling (Ribo-seq) have significantly advanced our understanding of translational regulation in vivo. However, the analysis and visualization of Ribo-seq data remain challenging. Despite the availability of various analytical pipelines,
Zhipeng Zhou, Shuchao Ren
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Translation is a crucial step in gene expression. Over the past decade, the development and application of ribosome profiling (Ribo-seq) have significantly advanced our understanding of translational regulation in vivo. However, the analysis and visualization of Ribo-seq data remain challenging. Despite the availability of various analytical pipelines,
Zhipeng Zhou, Shuchao Ren
exaly +3 more sources
Poly-A Tailing and Adaptor Ligation Methods for Ribo-Seq Library Construction
2021Ribosome profiling is a powerful technique that enables researchers to monitor translational events across the transcriptome. It provides a snapshot of ribosome positions and density across the transcriptome at a sub-codon resolution. Here we describe the whole procedure of profiling ribosome footprints in mammalian cells.
Jingfan, Qiu, Shu-Bing, Qian
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Single-cell Ribo-seq reveals cell cycle-dependent translational pausing
Nature, 2021Single-cell sequencing methods have enabled in-depth analysis of the diversity of cell types and cell states in a wide range of organisms. These tools focus predominantly on sequencing the genomes1, epigenomes2 and transcriptomes3 of single cells. However, despite recent progress in detecting proteins by mass spectrometry with single-cell resolution4 ...
Michael VanInsberghe +4 more
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RiboSimR: A Tool for Simulation and Power Analysis of Ribo-seq Data
2020RNA-seq and Ribo-seq are widespread quantitative methods for assessing transcription and translation. They can be used to detect differential expression, differential translation, and differential translation efficiency between conditions. The statistical power to detect differential genes is affected by multiple factors, such as the number of ...
Patrick Perkins +3 more
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Cell Systems, 2018 Summary Ribosome profiling (Ribo-seq) is a powerful technique for measuring protein translation; however, sampling errors and biological biases are prevalent and poorly understood.
Han Fang +2 more
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