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قابل دانلود از سه شنبه, ۲۲ فروردين ۱۴۰۲
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فهرست مطالب: Preface . . . . . . . . . . . . . . . . vContributors. . . . . . . . . . . . . . . . . . . ix PART I DNA METHYLATION 1 Generating Sequencing-Based DNA Methylation Maps from Low DNA Input Samples. . . . . . . . . . . . . . . . . . 3 Suzan Al Momani, Euan J. Rodger, Peter A. Stockwell, Michael R. Eccles, and Aniruddha Chatterjee 2 Data Analysis of DNA Methylation Epigenome-Wide Association Studies (EWAS): A Guide to the Principles of Best Practice . . . . . . . . . . . . . . . . . . 23 Basharat Bhat and Gregory T. Jones 3 Next-Generation Bisulfite Sequencing for Targeted DNA Methylation Analysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 47 Jim Smith, Robert C. Day, and Robert J. Weeks 4 Editing of DNA Methylation Patterns Using CRISPR-Based Tools . . . . . . . . . . . 63 Jim Smith, Rakesh Banerjee, Robert J. Weeks, and Aniruddha Chatterjee 5 Nanopore Sequencing and Data Analysis for Base-Resolution Genome-Wide 5-Methylcytosine Profiling . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 75 Allegra Angeloni, James Ferguson, and Ozren Bogdanovic PART II PROTEIN-DNA INTERACTIONS 6 Chromatin Immunoprecipitation Sequencing (ChIP-seq) Protocol for Small Amounts of Frozen Biobanked Cardiac Tissue . . . . . . . . . . . . . . . . . . . . . 97 Jiayi Pei, Noortje A. M. van den Dungen, Folkert W. Asselbergs, Michal Mokry, and Magdalena Harakalova 7 A Robust Protocol for Investigating the Cohesin Complex by ChIP-Sequencing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 113 Macarena Moronta Gines and Kerstin S. Wendt 8 Epi-Decoder: Decoding the Local Proteome of a Genomic Locus by Massive Parallel Chromatin Immunoprecipitation Combined with DNA-Barcode Sequencing. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 123 Maria Elize van Breugel and Fred van Leeuwen 9 A Protocol for Studying Transcription Factor Dynamics Using Fast Single-Particle Tracking and Spot-On Model-Based Analysis . . . . . . . 151 Asmita Jha and Anders S. Hansen 10 Characterization of Mammalian Regulatory Complexes at Single-Locus Resolution Using TINC. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 175 Anja S. Knaupp, Ralf B. Schittenhelm, and Jose M. Polo vii11 Profiling Protein–DNA Interactions Cell-Type-Specifically with Targeted DamID. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 195 Owen J. Marshall and Caroline Delandre 12 Genome-Wide Mapping and Microscopy Visualization of Protein–DNA Interactions by pA-DamID . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 215 Tom van Schaik, Stefano G. Manzo, and Bas van Steensel 13 The dCypher Approach to Interrogate Chromatin Reader Activity Against Posttranslational Modification-Defined Histone Peptides and Nucleosomes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 231 Matthew R. Marunde, Irina K. Popova, Ellen N. Weinzapfel, and Michael-C. Keogh PART III CHROMATIN ACCESSIBILITY 14 High-Resolution ATAC-Seq Analysis of Frozen Clinical Tissues . . . . . . . . . . . . . . 259 Paloma Cejas and Henry W. Long 15 Single-Molecule Multikilobase-Scale Profiling of Chromatin Accessibility Using m6A-SMAC-Seq and m6A-CpG-GpC-SMAC-Seq. . . . . . . . . . . . . . . . . . . . 269 Georgi K. Marinov, Zohar Shipony, Anshul Kundaje, and William J. Greenleaf PART IV GENOME STRUCTURE AND ORGANIZATION 16 Circular Chromosome Conformation Capture Sequencing (4C-Seq) in Primary Adherent Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 301 Judith Marsman, Robert C. Day, and Gregory Gimenez 17 Mammalian Micro-C-XL . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 321 Nils Krietenstein and Oliver J. Rando 18 In Situ HiC . . . . . . . . . . . . . . . . . . 333 Timothy M. Johanson and Rhys S. Allan 19 LncRNA–Chromatin Pull-Down Using Biotin-Conjugated DNA Probes. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 345 Debina Sarkar and Sarah D. Diermeier 20 Superresolution Microscopy for Visualization of Physical Contacts Between Chromosomes at Nanoscale Resolution . . . . . . . . . . . . . . . . . . . . . . . . . . . 359 Zulin Yu and Tamara A. Potapova Index . . . . . . . . .. . . . . . . . . . 377 مشخصات فایل |
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| عنوان (Title): | Chromatin_ Methods and Protocols |
| نام فایل (File name): | 910-www.GeneProtocols.ir-Chromatin_ Methods and Protocols-Humana (2022).pdf |
| عنوان فارسی (Title in Persian): | کروماتین- روشها و پروتکل ها |
| ایجاد کننده: | Julia Horsfield, Judith Marsman |
| زبان (Language): | انگلیسی English |
| سال انتشار: | 2022 |
| شابک ISBN: | 1071621394, 9781071621394 |
| نوع سند (Doc. type): | کتاب |
| فرمت (File extention): | |
| حجم فایل (File size): | 11.8 مگابایت |
| تعداد صفحات (Book length in pages): | 375 |
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