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Enzymes of Epigenetics

  • 1st Edition, Volume 573 - June 29, 2016
  • Latest edition
  • Editor: Ronen Marmorstein
  • Language: English

Enzymes of Epigenetics, one of two new volumes in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the f… Read more

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Description

Enzymes of Epigenetics

, one of two new volumes in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field.

This volume covers research methods that are employed to study epigenetic regulation and includes structural, biochemical, molecular, biological, cellular, computational, and systems approaches.

Topics include chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies and small molecule epigenetic regulators, and biological connections

Key features

  • Continues the legacy of this premier serial with quality chapters authored by leaders in the field
  • Contains two new volumes covering research methods in enzymes of epigenetics
  • Covers topics such as chromatin structure and histones, posttranslational histone modification enzymes and complexes, histone modification binders, DNA modifications and nucleic acid regulators, epigenetic technologies and small molecule epigenetic regulators and biological connections

Readership

Biochemists, biophysicists, molecular biologists, analytical chemists, and physiologists.

Table of contents

Chromatin Structure and Histones

1. In Vitro Chromatin Assembly - Strategies and Quality Control
Uma Muthurajan, Francesca Mattiroli, Serge Bergeron, Keda Zhou, Yajie Gu, Srinivas Chakravarthy, Pamela Dyer, Thomas Irving and Karolin Luger

2. Preparation, Crystallization and Structure Determination of Chromatin Enzyme/Nucleosome Complexes
Robert K. McGinty, Ravindra D. Makde and Song Tan

3. Preparation of Recombinant Centromeric Nucleosomes and Formation of Complexes with Non-Histone Centromere Proteins
Nikolina Sekulic and Ben E. Black

4. Functional Characterization of Histone Chaperones using SNAP-Tag-Based Imaging to Assess De Novo Histone Deposition
Camille Clément, Isabelle Vassias, Dominique Ray-Gallet and Geneviève Almouzni

5. Analysis of Nucleosome Sliding by ATP-Dependent Chromatin Remodelling Enzymes
Coral Y. Zhou and Geeta J. Narlikar

Posttranslational Histone Modification Enzymes and Complexes

6. In Vitro Activity Assays for Myst Histone Acetyltransferases and Adaptation for High-Throughput Inhibitor Screening
Cheryl E. McCullough and Ronen Marmorstein

7. Preparation and Biochemical Analysis of Classical Histone Deacetylases
Alejandro Villagra, Eva Sahakian and Edward Seto

8. Recombinant Preparation, Biochemical Analysis, and Structure Determination of Sirtuin Family Histone/Protein Deacylases
Benjamin Suenkel and Clemens Steegborn

9. Preparation, Biochemical Analysis and Structure Determination of SET Domain Histone Methyltransferases
Elisa Bergamin and Jean Francois Couture

10. Expression, Purification and Biochemical Analysis of the LSD1/KDM1A Histone Demethylase
Benoit Laurent and Yang Shi

11. LSD1 Histone Demethylase Assays and Inhibition
Dawn Hayward and Philip A. Cole

12. Purification, Biochemical Analysis, and Structure Determination of JmjC Lysine Demethylases
Swathi Krishnan and Raymond C. Trievel

13. Preparation and Analysis of Native Chromatin Modifying Complexes
Yannick Doyon and Jacques Côté

Histone Modification Binders (Readers)

14. Preparation, Biochemical Analysis and Structure Determination of the Bromodomain, an Acetyl-lysine Binding Domain
Chunyan Ren, Lei Zeng and Ming-Ming Zhou

15. Preparation, Biochemical Analysis and Structure Determination of Methyllysine Readers
Catherine A. Musselman and Tatiana G. Kutateladze

DNA Modifications and Nucleic Acid Regulators

16. Quantification of Oxidized 5-Methylcytosine Bases and TET Enzyme Activity
Monica Yun Liu, Jamie E. DeNizio and Rahul M. Kohli

17. Characterization of how DNA Modifications Affect DNA Binding by C2H2 Zinc Finger Proteins
Anamika Patel, Hideharu Hashimoto, Xing Zhang and Xiaodong Cheng

18. Crystallographic Studies of Telomerase
Hunter Hoffman and Emmanuel Skordalakes

19. Detection and Analysis of Long Non-Coding RNAs
Fan Lai, Ezra Blumenthal and Ramin Shiekhattar

20. Identifying Centromeric RNAs Involved in Histone Dynamics in Vivo
Delphine Quénet, David Sturgill and Yamini Dalal

Review quotes

Praise for the Series:
"Should be on the shelves of all libraries in the world as a whole collection."—Chemistry in Industry
"The work most often consulted in the lab."—Enzymologia
"The Methods in Enzymology series represents the gold-standard." —Neuroscience

Product details

  • Edition: 1
  • Latest edition
  • Volume: 573
  • Published: July 13, 2016
  • Language: English

About the editor

RM

Ronen Marmorstein

Dr. Marmorstein obtained his Ph.D. in Chemistry from the University of Chicago and, following a postdoctoral fellowship at Harvard University and a faculty appointment at The Wistar Institute, he joined the faculty at the Perelman School of Medicine at the University of Pennsylvania. Dr. Marmorstein is currently a Professor in the Department of Biochemistry and Biophysics and an Investigator in the Abramson Family Cancer Research Institute with adjunct appoints in the Department of Chemistry at the University of Pennsylvania and The Wistar Institute. The Marmorstein laboratory uses a broad range of molecular, biochemical and biophysical research tools centered on X-ray crystal structure determination to understand the chemical basis for the epigenetic regulation of gene expression. The laboratory is particularly interested in gene regulatory proteins and their upstream signaling kinases that are aberrantly regulated in cancer and other age-related disorders such as obesity and Alzheimer’s disease, and the use of high-throughput small molecule screening and structure-based design strategies towards the development of protein-specific small-molecule probes of protein function and for development into therapeutic agents.
Affiliations and expertise
Perelman School of Medicine, University of Pennsylvania, USA

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