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RIBO-seq in Bacteria: a Sample Collection and Library Preparation Protocol for NGS Sequencing
Journal of Visualized Experiments, 2021The ribosome profiling technique (RIBO-seq) is currently the most effective tool for studying the process of protein synthesis in vivo. The advantage of this method, in comparison to other approaches, is its ability to monitor translation by precisely mapping the position and number of ribosomes on a mRNA transcript.
Kopik, Natalia +4 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,
Shuchao Ren, Zhipeng Zhou
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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,
Shuchao Ren, Zhipeng Zhou
exaly +3 more sources
A Versatile Ribo-seq Workflow for Enhanced Analysis of Ribosome Dynamics
Ribosome profiling (or ribo-sequencing) is a powerful technique that enables high-resolution analysis of active translation by sequencing ribosome-protected mRNA fragments. Developed in 2009 by Nicholas Ingolia and Jonathan Weissman, it provides direct insights into which mRNAs are being translated and at what rate, surpassing traditional ...Hélène, Hérault +2 more
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Ribo-seq analysis of B16/F10 WT and Ythdf1 KO group
2022To identify the efficiency of downstream translation regulated by Ythdf1 in an m6A-dependent manner, we performed Ribo-seq analysis of WT and Ythdf1 KO group.
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Computational methods for translation regulation analysis from Ribo-seq data
2019Since its inception, Ribo-seq, a technique for deep sequencing the ribosome protected fragments (RPFs) of mRNA, has greatly expanded our knowledge of translation. With Ribo-seq, the coding potentials of the transcripts are re-evaluated, thousands of novel open reading frames (ORFs) are found translating, especially within those previously presumed non ...
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Nascent Ribo-Seq Measures Ribosomal Loading Time and Reveals Kinetic Impact on Ribosome Density
Nature Methods, 2021Anjana Shenoy +2 more
exaly
GWIPS-Viz: Development of a Ribo-Seq Genome Browser.
Nucleic Acids Research, 2014Pavel Baranov +2 more
exaly
riboStreamR: A web application for quality control, analysis, and visualization of Ribo-seq data
2017 IEEE 7th International Conference on Computational Advances in Bio and Medical Sciences (ICCABS), 2017Patrick Perkins, Steffen Heber
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