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Enzymes of epigenetics : Part A / edited by Ronen Marmorstein

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, bioche... Full description

PPN (Catalogue-ID): 863395864
Personen: Marmorstein, Ronen [HerausgeberIn]
Format: eBook eBook
Language: English
Published: Amsterdam, Elsevier, Academic Press, 2016
Edition: First edition
Series: Methods in enzymology (volume 573)
Basisklassifikation: 35.74
Subjects:

Epigenomics

Epigenetik

Formangabe: Aufsatzsammlung
Notes: Description based upon print version of record.
Physical Description: 1 Online-Ressource (xix, 507, [24] Seiten)
Enthaltenes Werk
Gesamtaufnahme:
Zur Gesamtaufnahme , Part A
ISBN: 978-0-12-805365-2
Sekundärausgabe Online-Ausg.

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505 8 0 |t In vitro chromatin assembly : strategies and quality control  |r Uma Muthurajan, Francesca Mattiroli, Serge Bergeron, Keda Zhou, Yajie Gu, Srinivas Chakravarthy, Pamela Dyer, Thomas Irving and Karolin Luger 
505 8 0 |t Preparation, crystallization, and structure determination of chromatin enzyme/nucleosome complexes  |r Robert K. McGinty, Ravindra D. Makde and Song Tan 
505 8 0 |t Preparation of recombinant centromeric nucleosomes and formation of complexes with nonhistone centromere proteins  |r Nikolina Sekulic and Ben E. Black 
505 8 0 |t Functional characterization of histone chaperones using SNAP-tag-based imaging to assess De Novo histone deposition  |r Camille Clément, Isabelle Vassias, Dominique Ray-Gallet and Geneviève Almouzni 
505 8 0 |t Analysis of nucleosome sliding by ATP-dependent chromatin remodelling enzymes  |r Coral Y. Zhou and Geeta J. Narlikar 
505 8 0 |t In vitro activity assays for MYST histone acetyltransferases and adaptation for high-throughput inhibitor screening  |r Cheryl E. McCullough and Ronen Marmorstein 
505 8 0 |t Preparation and biochemical analysis of classical histone deacetylases  |r Alejandro Villagra, Eva Sahakian and Edward Seto 
505 8 0 |t Recombinant preparation, biochemical analysis, and structure determination of sirtuin family histone/protein deacylases  |r Benjamin Suenkel and Clemens Steegborn 
505 8 0 |t Preparation, biochemical analysis, and structure determination of SET domain histone methyltransferases  |r Elisa Bergamin and Jean Francois Couture 
505 8 0 |t Expression, purification, and biochemical analysis of the LSD1/KDM1A histone demethylase  |r Benoit Laurent and Yang Shi 
505 8 0 |t LSD1 histone demethylase assays and inhibition  |r Dawn Hayward and Philip A. Cole 
505 8 0 |t Purification, biochemical analysis, and structure determination of JmjC lysine demethylases  |r Swathi Krishnan and Raymond C. Trievel 
505 8 0 |t Preparation and analysis of native chromatin-modifying complexes  |r Yannick Doyon and Jacques Côté 
505 8 0 |t Preparation, biochemical analysis, and structure determination of the bromodomain, an acetyl-lysine binding domain  |r Chunyan Ren, Lei Zeng and Ming-Ming Zhou 
505 8 0 |t Preparation, biochemical analysis, and structure determination of methyllysine readers  |r Catherine A. Musselman and Tatiana G. Kutateladze 
505 8 0 |t Quantification of oxidized 5-methylcytosine bases and TET enzyme activity  |r Monica Yun Liu, Jamie E. DeNizio and Rahul M. Kohli 
505 8 0 |t Characterization of how DNA modifications affect DNA binding by C2H2 zinc finger proteins  |r Anamika Patel, Hideharu Hashimoto, Xing Zhang and Xiaodong Cheng 
505 8 0 |t Crystallographic studies of telomerase  |r Hunter Hoffman and Emmanuel Skordalakes 
505 8 0 |t Detection and analysis of long noncoding RNAs  |r Fan Lai, Ezra Blumenthal and Ramin Shiekhattar 
505 8 0 |t Identifying centromeric RNAs involved in histone dynamics in vivo  |r Delphine Quénet, David Sturgill and Yamini Dalal. 
520 |a 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 
520 |a Front Cover -- Enzymes of Epigenetics, Part A -- Copyright -- Contents -- Contributors -- Preface -- Part I: Chromatin Structure and Histones -- Chapter One: In Vitro Chromatin Assembly: Strategies and Quality Control -- 1. Introduction -- 2. Chromatin Reconstitution Strategies -- 2.1. Fluorescent Labeling of the Histones and Refolding into Octamer -- 2.1.1. Equipment -- 2.1.2. Buffers and Reagents -- 2.1.3. Procedure -- 2.1.4. Notes -- 2.2. End-Labeling of DNA -- 2.2.1. Equipment -- 2.2.2. Buffers and Reagents -- 2.2.3. Procedure -- 2.2.4. Notes -- 2.3. Nucleosome Assembly 
520 |a 2.3.1. Procedure -- 2.3.2. Notes -- 2.4. Trinucleosome Assembly -- 2.4.1. Equipment -- 2.4.2. Buffers and Reagents -- 2.4.3. Procedure -- 2.4.4. Notes -- 2.5. ``Microscale´´ or Step Dilution Method for Nucleosome Reconsitution -- 3. Quality Control Strategies for In Vitro Reconstituted Chromatin -- 3.1. Micrococcal Nuclease Digestion -- 3.1.1. Equipment -- 3.1.2. Buffers and Reagents -- 3.1.3. Procedure -- 3.1.4. Notes -- 3.2. Analysis of MNase-Digested Products Via Bioanalyzer 2100 -- 3.2.1. Equipment -- 3.2.2. Buffers and Reagents -- 3.2.3. Procedure -- 3.2.4. Notes 
520 |a 3.3. Size-Exclusion Chromatography Coupled with Multiangle Light Scattering -- 3.3.1. Equipment -- 3.3.2. Buffer and Reagents -- 3.3.3. Procedure -- 3.3.4. Notes -- 3.4. Analytical Ultracentrifugation -- 3.4.1. Equipment -- 3.4.2. Buffers and Reagents -- 3.4.3. Notes -- 3.4.4. Procedure -- 3.5. Atomic Force Microscopy Analysis of Trinucleosomes -- 3.5.1. Equipment -- 3.5.2. Buffers and Reagents -- 3.5.3. Procedure -- 3.5.4. AFM Data Processing -- 3.5.5. Notes -- 3.6. Small-Angle X-ray Scattering -- 3.6.1. Equipment -- 3.6.2. Buffers and Reagents -- 3.6.3. Procedure -- 3.6.4. Notes 
520 |a 4. Summary and Conclusion -- References -- Chapter Two: Preparation, Crystallization, and Structure Determination of Chromatin Enzyme/Nucleosome Complexes -- 1. Introduction -- 2. Prepare Nucleosome Core Particles -- 3. Prepare Chromatin Protein -- 4. Purify Chromatin Complex -- 4.1. Analytical Purification -- 4.2. Preparative Purification -- 5. Concentrate Chromatin Complex -- 6. Crystallize Chromatin Complex -- 6.1. Crystallization -- 6.2. Fluorescent Labeling of Chromatin Protein for Cocrystallization with the Nucleosome -- 7. Postcrystallization Soaks to Improve Diffraction -- References 
520 |a Chapter Three: Preparation of Recombinant Centromeric Nucleosomes and Formation of Complexes with Nonhistone Centromere P ... -- 1. Introduction -- 2. Preparation of Histones for CENP-A Nucleosome Assembly -- 2.1. Expression of His-H2A and H2B Monomers and (CENP-A/H4)2 Heterotetramers -- 2.1.1. Equipment -- 2.1.2. Reagents -- 2.1.3. Buffers -- 2.1.4. Protocol -- 2.2. Purification of (CENP-A/H4)2 Heterotetramer -- 2.2.1. Equipment -- 2.2.2. Reagents -- 2.2.3. Buffers -- 2.2.4. Protocol -- 2.3. Purification of His-H2A, H2A, and H2B Monomers -- 2.3.1. Equipment -- 2.3.2. Reagents -- 2.3.3. Buffers 
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