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Table of contents

  1. Front Matter
    Pages i-xvi
  2. Introduction

    1. Front Matter
      Pages 1-1
    2. Antonio Lentini, Colm E. Nestor
      Pages 37-50
  3. Detection and Quantification of DNA Modifications Using Mass Spectrometry and Capillary Gel Electrophoresis

    1. Front Matter
      Pages 51-51
    2. Yan-Jiun Lee, Peter R. Weigele
      Pages 53-66
    3. Konstantinos Boulias, Eric Lieberman Greer
      Pages 79-90
    4. Aleksandra Skalska, Agnieszka Siomek-Gorecka, Ryszard Olinski, Rafal Rozalski
      Pages 109-122
    5. Marta Starczak, Aleksandra Skalska, Rafal Rozalski, Ryszard Olinski, Daniel Gackowski
      Pages 123-136
    6. Romualdas Vaisvila, Lise Hunault, Lana Saleh
      Pages 137-144
  4. Assessing the Levels and Spatial Distribution of DNA Modifications Using Antibody-Based Approaches

    1. Front Matter
      Pages 145-145
    2. Marcus D. Wallis, Rebecca C. Trueman
      Pages 183-191
    3. Marcos Viejo, Igor Yakovlev, Carl Gunnar Fossdal
      Pages 209-216
    4. Seema Rajani, Christopher Gell, Abdulkadir Abakir, Robert Markus
      Pages 227-254
    5. Alexandre Champroux, Chantal Goubely, Joëlle Henry-Berger, Joël R. Drevet, Ayhan Kocer
      Pages 255-268
    6. Lidia Gackowska, Anna Labejszo, Daniel Gackowski
      Pages 269-284
  5. Mapping DNA Modifications

    1. Front Matter
      Pages 285-285
    2. Reinhard Stöger
      Pages 287-299
    3. Millissia Ben Maamar, Ingrid Sadler-Riggleman, Daniel Beck, Michael K. Skinner
      Pages 301-310
    4. Abdulkadir Abakir, Fahad Alenezi, Alexey Ruzov
      Pages 311-319
    5. Zhijun Huang, Yingying Meng, Piroska E. Szabó, Rahul M. Kohli, Gerd P. Pfeifer
      Pages 321-331
    6. Tong Wang, Meiqi Luo, Kiara N. Berrios, Emily K. Schutsky, Hao Wu, Rahul M. Kohli
      Pages 349-367
  6. Applications of Genome Targeting Methods in Epigenetics

    1. Front Matter
      Pages 379-379
    2. Benjamin Buchmuller, Álvaro Muñoz-López, Mario Gieß, Daniel Summerer
      Pages 381-399
  7. Analysis of DNA Modifications Sequencing Datasets

    1. Front Matter
      Pages 429-429
    2. Antonio Lentini, Colm E. Nestor
      Pages 431-439
    3. Gang Ma, Isaac A. Babarinde, Qiang Zhuang, Andrew P. Hutchins
      Pages 451-465
  8. Back Matter
    Pages 491-495

About this book

Introduction

This book provides an overview of methods and experimental protocols that are currently used to analyze the presence and abundance of non-canonical DNA nucleotides in different biological systems. Focusing particularly on the newly discovered and less studied DNA modifications that are enzymatically produced and are likely to play specific roles in various biological processes, the volume explores chromatography- and mass spectrometry-based techniques for the detection and quantification of DNA modifications, antibody-based approaches to study their spatial distribution in different cells and tissues, and methods to analyze their genomic distribution with the help of bioinformatics tools that interrogate the corresponding datasets. 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 comprehensive, DNA Modifications: Methods and Protocols serves as an ideal guide to research scientists and PhD students in this rapidly developing discipline, and, thus, will ultimately contribute to deciphering the roles of non-canonical DNA nucleotides in different biological systems.

Keywords

Non-canonical DNA nucleotides DNA demethylation Mass Spectrometry Antibody-based techniques Bioinformatics Epigenetics Capillary Gel Electrophoresis DNA modification mapping

Editors and affiliations

  • Alexey Ruzov
    • 1
  • Martin Gering
    • 2
  1. 1.Centre for Biomolecular Sciences, University ParkUniversity of NottinghamNottinghamUK
  2. 2.School of Life Sciences, Queen’s Medical CentreUniversity of NottinghamNottinghamUK

Bibliographic information

  • DOI https://doi.org/10.1007/978-1-0716-0876-0
  • Copyright Information The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature 2021
  • Publisher Name Humana, New York, NY
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-0716-0875-3
  • Online ISBN 978-1-0716-0876-0
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site