عناصر جابجاشونده - روشها و پروتکل ها Transposable Elements_ Methods and Protocols

فهرست مطالب: Preface........... . . . v Contributors........... . . . . xi 1 An Overview of Best Practices for Transposable Element Identification, Classification, and Annotation in Eukaryotic Genomes... . . . . 1 Fernando Rodriguez and Irina R. Arkhipova 2 Assembly-Free Detection and Quantification of Transposable Elements with dnaPipeTE......... . . 25 Cle´ment Goubert 3 Detecting Horizontal Transfer of Transposons.... . . . . . 45 James D. Galbraith, Atma M. Ivancevic, Zhipeng Qu, and David L. Adelson 4 Genotyping of Transposable Element Insertions Segregating in Human Populations Using Short-Read Realignments...... 63 Xun Chen, Guillaume Bourque, and Cle´ment Goubert 5 A Pangenome Approach to Detect and Genotype TE Insertion Polymorphisms......... . . . 85 Cristian Groza, Guillaume Bourque, and Cle´ment Goubert 6 Experimental Validation of Transposable Element Insertions Using the Polymerase Chain Reaction (PCR)...... 95 Miriam Merenciano, Marta Coronado-Zamora, and Josefa Gonza´lez 7 Quantification of LINE-1 RNA Expression from Bulk RNA-seq Using L1EM......... . . . . . 115 Wilson McKerrow 8 Genome-Wide Young L1 Methylation Profiling by bs-ATLAS-seq.. 127 Claude Philippe and Gael Cristofari 9 Nanopore Sequencing to Identify Transposable Element Insertions and Their Epigenetic Modifications...... . . . 151 Nathan Smits and Geoffrey J. Faulkner 10 Targeted Nanopore Resequencing and Methylation Analysis of LINE-1 Retrotransposons......... . 173 Arpita Sarkar, Sophie Lanciano, and Gael Cristofari 11 Inferring Protein-DNA Binding Profiles at Interspersed Repeats Using HiChIP and PAtChER....... . . 199 Darren Taylor and Miguel R. Branco 12 Affinity-Based Interactome Analysis of Endogenous LINE-1 Macromolecules......... . . 215 Luciano H. Di Stefano, Leila J. Saba, Mehrnoosh Oghbaie, Hua Jiang, Wilson McKerrow, Maria Benitez-Guijarro, Martin S. Taylor, and John LaCava ix x Contents 13 LINE-1 Retrotransposition Assays in Embryonic Stem Cells.. . . . . . 257 Marta Garcia-Can˜adas, Francisco J. Sanchez-Luque, Laura Sanchez, Johana Rojas, and Jose L. Garcia Perez 14 Experimental Approaches to Study Somatic Transposition in Drosophila Using Whole-Genome DNA Sequencing..... . . . . 311 Marius van den Beek, Natalia Rubanova, and Katarzyna Siudeja 15 Precise and Scarless Insertion of Transposable Elements by Cas9-Mediated Genome Engineering......... . . . 329 Vivien Marie Weber, Aure´lien J. Doucet, and Gael Cristofari 16 Epigenetic Manipulation of Transposable and Repetitive Elements.. . . . . . 355 Joanna W. Jachowicz 17 Genetic Knockout of TE Insertions by CRISPR-Cas9... . . . . . 369 David M. Simpson and Edward B. Chuong Index........... . . . . 381   مشخصات فایل
عنوان (Title):	Transposable Elements_ Methods and Protocols
نام فایل (File name):	996-www.GeneProtocols.ir-Transposable Elements_ Methods and Protocols-Humana Press (2023).pdf
عنوان فارسی (Title in Persian):	عناصر جابجاشونده - روشها و پروتکل ها
ایجاد کننده:	Miguel R. Branco, Alexandre de Mendoza Soler
زبان (Language):	انگلیسی English
سال انتشار:	2023
شابک ISBN:	9781071628829
نوع سند (Doc. type):	کتاب
فرمت (File extention):	PDF
حجم فایل (File size):	13.6 مگابایت
تعداد صفحات (Book length in pages):	387

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