Ex Vivo Culture for Preimplantation Mouse Embryo to Analyse Pluripotency -- Microfabricated Device for High Resolution Imaging of Preimplantation Embryos -- In Vitro Culture of Mouse Blastocyst to the Egg Cylinder Stage via Mural Trophectoderm Excision -- Spatially Organized Differentiation of Mouse Pluripotent Stem Cells on Micropatterned Surfaces -- Mouse Primordial Germ Cells: In Vitro Culture and Conversion to Pluripotent Stem Cell Lines -- Generation of Primordial Germ Cell-Like Cells in Small and Large Scales -- Genome-Scale CRISPR Screening for Regulators of Cell Fate Transitions -- Somatic Reprogramming by Nuclear Transfer -- Targeted Transgenic Mice using CRISPR/Cas9 Technology -- Whole-Mount Immunofluorescence Staining of Early Mouse Embryos -- Investigating the Inner Cell Mass of the Mouse Blastocyst by Combined Immunofluorescence Staining and RNA Fluorescent In Situ Hybridization -- Mapping of Chromosome Territories by 3D-Chromosome Painting during Early Mouse Development -- Deciphering the Early Mouse Embryo Transcriptome by Low-Input RNA-seq -- Studying DNA Methylation Genome-Wide by Bisulfite Sequencing from Low Amounts of DNA in Mammals -- Profiling DNA Methylation Genome-Wide in Single Cells -- Tracking Histone Modifications in Embryos and Low Input Samples using Ultrasensitive STAR ChIP-seq -- Chromatin Profiling in Mouse Embryonic Germ Cells by CUT&RUN -- DamID to Map Genome-Protein Interactions in Pre-Implantation Mouse Embryos -- Understanding Chromosome Structure during Early Mouse Development by Single-Cell Hi-C Analysis -- Bioinformatic Analysis of Single Cell Hi-C Data from Early Mouse Embryo.

This volume explores the latest techniques used to study and understand chromatin reprogramming in embryos and germ cells. Various culture systems are presented, which consist of invaluable tools to investigate many developmental processes. This book also looks at methods for direct examination of DNA, RNA, and proteins in embryos, along with low-input and single-cell assays for exploring these features at the genome-wide scale. Written in the highly successful Methods in Molecular Biology series format, 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. Cutting-edge and thorough, Epigenetics Reprogramming During Mouse Embryogenesis: Methods and Protocols is a valuable resource for any scientist and researcher looking to make new discoveries in this fascinating field of chromatin reprogramming. .