Overview

This second edition explores techniques involving pseudogenic DNA, RNA, and proteins. Chapters describe how to identify pseudogenes and how to study the functions and alterations of pseudogenic RNA and proteins, both in vitro, and in vivo. Written in the highly successful Methods in Molecular Biology series format, methodological 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 while avoiding known pitfalls. Authoritative and cutting-edge, Pseudogenes: Functions and Protocols, Second Edition aims to be a practical guide to researches, useful to help further their study in this field.

Full Product Details

Author:   Laura Poliseno
Publisher:   Springer-Verlag New York Inc.
Imprint:   Springer-Verlag New York Inc.
Edition:   2nd ed. 2021
Volume:   2324
Weight:   0.758kg
ISBN:  

9781071615058

ISBN 10:   107161505
Pages:   384
Publication Date:   26 June 2022
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: Introductory Chapter 1. Pseudogenes: Four Decades of Discovery Leonardo Salmena   Part II: Methods for Pseudogene Identification 2. Methods to Identify and Study the Evolution of Pseudogenes using a Phylogenetic Approach Jacques Dainat and Pierre Pontarotti   3. Computational Methods For Pseudogene Annotation Based on Sequence Homology Paul M. Harrison   4. A Methodology to Study pseudogenized lincRNAs Sweta Talyan, Miguel A. Andrade-Navarro, and Enrique M. Muro   Part III: Pseudogene Repositories 5. GENCODE Pseudogenes Cristina Sisu   Part IV: Methods to Study Pseudogene-Related Alterations in Cancer 6. Comprehensive Detection of Pseudogenes Transcribed by Readthrough Rui Pinto, Daniel Sobral, and Ana Rita Grosso     Part V: Methods to Study Transcribed Pseudogenes 7. Mathematical modeling of ceRNA-based interactions Andrew Dhawan   8. Pseudogenes as Competitive Endogenous RNAs: Target Prediction and Validation Florian A. Karreth, Ugo Ala, Paolo Provero, and Pier Paolo Pandolfi   9-Pseudogenes as Competitive Endogenous RNAs: Testing miRNA Dependency Xiaonan Xu and Florian A. Karreth   10. An Overview of the Computational Models Dealing with the Regulatory ceRNA Mechanism and ceRNA Deregulation in Cancer Federica Conte, Giulia Fiscon, Pasquale Sibilio, Valerio Licursi, and Paola Paci   11. Studying the Oncosuppressive Functions of PTENP1 as a ceRNA Glena Travis, Nahal Haddadi, Ann M. Simpson, Deborah J. Marsh, Eileen M. McGowan, and Najah T. Nassif   12. Methods to Study Protein-Binding to Pseudogene Transcripts Eusebio Chiefari, Biagio Arcidiacono, Maria Mirabelli, Francesco Saverio Brunetti, Domenica Maria Corigliano, Daniela Patrizia Foti, and Antonio Brunetti   13. Chromatin Regulation at Parental Gene Promoters by Pseudogene Sense lncRNAs Stefan Schoeftner, Michele Scarola, and Roberta Benetti   14.Pseudogenes: A Novel Source of Trans Acting Antisense RNAs Nicholas C. Lister, Per Johnsson, Paul D. Waters, and Kevin V. Morris     Part VI: Methods to Study Translated Pseudogenes 15. Methods to Study Translated Pseudogenes: Recombinant Expression and Complementation, Targeted Proteomics and RNA Profiling Anne Parle-McDermott, Niamh Bookey, Paula Meleady and Paola Drago   16. A Restriction Endonuclease-Based Assay to distinguish NANOGP8 Retrogene from Parental NANOG Hamida Thakur and Abid R. Mattoo     Part VII: CRISPR/CAS9 Technology Applied To Pseudogenes 17-CRISPR/Cas Technologies Applied to Pseudogenes Marianna Vitiello and Laura Poliseno     Part VIII: In Vivo Models to Study Pseudogenes 18. Strategies to Study the Functions of Pseudogenes in Mouse Models of Cancer Ilah Bok and Florian A. Karreth     Part IX: Clinical Relevance of Pseudogenes 19. Pseudogene Profiling For Cancer Subtype Classification Yan Zhang and Deyou Zheng   20. Pseudogenes as Biomarkers and Therapeutic Targets in Human Cancers Cristina Sisu   21. Methods for the Detection of Circulating Pseudogenes and their use as Cancer Biomarkers Manjusha Vaidya and Kiminobu Sugaya     Part X: Methods To Avoid Pseudogene Detection 22. Dealing with Pseudogenes in Molecular Diagnostics in the Next Generation Sequencing Era Kathleen B.M. Claes, Toon Rosseel, and Kim De Leeneer

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