Overview
This book provides a single-source reference on the current state of the ribosome profiling method by describing experimental protocols for the quantitative analysis of translation in a variety of model organisms. In addition, the volume presents a detailed overview of the existing software tools and includes detailed description of methods for statistical analysis, data processing, and visualization of ribosome profiling data. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Ribosome Profiling: Methods and Protocols aims to provide the type of standardized protocols that have previously been unavailable in an effort to bypass the major barriers to wide use of ribosome profiling-based approaches.
Full Product Details
Author: Vyacheslav M. Labunskyy
Publisher: Springer-Verlag New York Inc.
Imprint: Springer-Verlag New York Inc.
Edition: 1st ed. 2021
Volume: 2252
Weight: 0.684kg
ISBN: 9781071611524
ISBN 10: 1071611526
Pages: 348
Publication Date: 26 March 2021
Audience:
Professional and scholarly
,
Professional & Vocational
Format: Paperback
Publisher's Status: Active
Availability: Manufactured on demand 
We will order this item for you from a manufactured on demand supplier.
Table of Contents
Part I: Experimental Protocols 1. Monitoring Bacterial Translation Rates Genome-Wide Eugene Oh 2. Identification of Translation Start Sites in Bacterial Genomes Sezen Meydan, Dorota Klepacki, Alexander S. Mankin, and Nora Vázquez-Laslop 3. Genome-Wide Ribosome Profiling of the Plasmodium falciparum Intraerythrocytic Developmental Cycle Florence Caro and Joseph L. DeRisi 4. Performing Ribosome Profiling to Assess Translation in Vegetative and Meiotic Yeast Cells Emily Nicole Powers and Gloria Ann Brar 5. Quantitative Comparisons of Translation Activity by Ribosome Profiling with Internal Standards Yinuo J. Wang and Wendy V. Gilbert 6. Genome-Wide Analysis of Translation in Replicatively Aged Yeast Hanna Barlit, Manish K. Rai, Sara Shoushtari, Carine Beaupere, and Vyacheslav M. Labunskyy 7. Tissue-Specific Ribosome Profiling in Drosophila Xun Chen and Dion Dickman 8. Measuring Organ-Specific Translation Elongation Rate in Mice Maxim Gerashchenko and Vadim N. Gladyshev 9. Active Ribosome Profiling with RiboLace: From Bench to Data Analysis Massimiliano Clamer, Fabio Lauria, Toma Tebaldi, and Gabriella Viero 10. Poly-A Tailing and Adaptor Ligation Methods for Ribo-Seq Library Construction Jingfan Qiu and Shu-Bing Qian 11. Choice of Ribonucleases for Ribosome Profiling Experiments Maxim Gerashchenko Part II: Bioinformatics and Statistical Analysis 12. Codon Resolution Analysis of Ribosome Profiling Data Alexander Bartholomäus and Zoya Ignatova 13. Assessing Ribosome Distribution Along Transcripts with Polarity Scores and Regression Slope Estimates Ilya E. Vorontsov, Artyom A. Egorov, Aleksandra S. Anisimova, Irina A. Eliseeva, Vsevolod J. Makeev, Vadim N. Gladyshev, Sergey E. Dmitriev, and Ivan V. Kulakovskiy 14. Unsupervised Bayesian Prediction of RNA Translation from Ribosome Profiling Data Etienne Boileau and Christoph Dieterich 15. uORF-seqr: A Machine Learning-Based Approach to the Identification of Upstream Open Reading Frames in Yeast Pieter Spealman, Armaghan Naik, and Joel McManus 16. Genome-Wide Analysis of Actively Translated Open Reading Frames Using RiboTaper/ORFquant Dermot Harnett, Eelco Meerdink, Lorenzo Calviello, Dominique Sydow, and Uwe Ohler
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