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Table of Contents: ... method for whole genome sequencing, haplotyping, and assembly -- Read-based phasing and analysis of phased variants with WhatsHap -- Hapcut2, a method for phasing genomes using experimental data -- Determining complete chromosomal haplotypes by mLinker...

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Table of Contents: ... and characterization of cellular senescence in salamanders -- Methods for studying appendicular skeletal biology in axolotls -- Fluorescence in situ hybridization of DNA-probes on mitotic chromosomes of the Mexican axolotl -- The use of small molecules to dissect...

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Table of Contents: ...A Basic and Simple Chromosome Preparation Protocol -- Metaphase chromosome preparation and classification of chromosomal aberrations -- Mitotic Index Analysis -- Preparation of Mitotic Cells for Fluorescence Microscopy -- Chemical induced Premature...

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Table of Contents: ...-Heparin Hydrogel Cultures for Modeling Human Neuronal Development and Alzheimer's Disease Pathology -- Computational Approaches to Assess Abnormal Metabolism in Alzheimer's Disease Using Transcriptomics -- FISHing for Chromosome Instability and Aneuploidy...

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Table of Contents: ... Stem Cells using ATAC-seq -- Transcriptomic Analysis of Human Naïve and Primed Pluripotent Stem Cells -- Study of X Chromosome Activity Status in Human Naïve Pluripotent Stem Cells using RNA-FISH -- Flow Cytometry Analysis of Cell-Surface Markers to Identify...

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Table of Contents: ...A Next Generation of Advances in Chromosome Architecture -- Single Molecule Narrowfield Microscopy of Protein-DNA Binding Dynamics in Glucose Signal Transduction of Live Yeast Cells -- Convolutional Neural Networks for Classifying Chromatin Morphology...

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Table of Contents: ... QSAR Models and Read-Across Predictions -- In Silico Methods for Chromosome Damage -- In Silico Methods for Carcinogenicity Assessment -- In Silico Models for Developmental Toxicity -- In Silico Models for Repeated-Dose Toxicity (RDT): Prediction...

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Table of Contents: ... -- Transformation Techniques for the Anaerobic Hyperthermophile Thermococcus kodakarensis -- Genetic Methods and Construction of Chromosomal Mutations in Methanogenic Archaea -- An interdomain conjugation protocol for plasmid-DNA transfer into Methanothermobacter...

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Liu, Jun
2022
Table of Contents: ... Artificial Chromosomes for Extended Genome Modification -- Site specific editing of the genome in Pluripotent cells -- Targeting the AAVS1 site with transgene cassette by CRISPR/Cas9 with an inducible transgene cassette for the to neuronal differentiation of human...

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Table of Contents: ...Normalization of Chromosome Contact Maps: Matrix Balancing and Visualization -- Methods to Assess the Reproducibility and Similarity of Hi-C Data -- Methods for the Analysis of Topological Associating Domains (TADs) -- Methods for the Differential...

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Table of Contents: ... histone peptides and nucleosomes -- High-resolution ATAC-seq analysis of frozen clinical tissues -- Single-molecule multikilobase-scale profiling of chromatin accessibility using m6A-SMAC-seq and m6A-CpG-GpC-SMAC-seq -- Circular chromosome conformation capture...

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Table of Contents: ... -- Interrogating global chromatin interaction network by high-throughput chromosome conformation capture (Hi-C) in plants -- Cytogenetic techniques for analysing meiosis in hexaploidy bread wheat -- Super-resolution chromatin visualisation by combined fluorescence...

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Table of Contents: ... of Immunoglobulin Genes from Antarctic Fish by PCR Methods -- Physical Mapping of Repeated Sequences on Fish Chromosomes by Fluorescence In Situ Hybridization (FISH) -- Functional Genomics of Fish Erythrocytes -- Stain-Free Approach for Western Blot Analysis of Zebrafish...

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Table of Contents: ... -- How to Use the Candida Genome Database -- Sub-Telomeric Chromatin Structure by Chromosome Conformation Capture (3C)-qPCR Methodology in Candida glabrata -- Construction of Double Heterozygous Deletion Strains for Complex Haploinsufficiency-Based Genetic...

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Table of Contents: ...Quantitative Chromosome Conformation Capture (3C-qPCR) -- Detection of Allele-Specific 3D Chromatin Interactions Using High-Resolution In-Nucleus 4C-Seq -- Tough Tissue Hi-C -- Mapping Mammalian 3D Genomes by Micro-C -- Targeted Chromosome Conformation...

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Table of Contents: ...Chromosome Conformation Capture in Bacteria and Archaea -- Micrococcal Nuclease Digestion Assays for the Analysis of Chromosome Structure in Archaea -- Detecting DNA Methylations in the Hyperthermoacidophilic Crenarchaeon Sulfolobus acidocaldarius using...

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Table of Contents: ... Chambers for Arabidopsis Seedlings for Mitotic Studies -- Live Fluorescence Imaging of Chromosome Segregation in Cultured Cells -- Staining of the Actin Cytoskeleton during Cell Division in Budding Yeast and Mammalian Cells -- Synchronizing Mammalian Cells...

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Table of Contents: ...Methods to Visualize the Actin Cytoskeleton during Plant Cell Division -- Immunolabeling of Nuclei/Chromosomes in Arabidopsis thaliana -- A Protocol for Genome-Wide Analysis of DNA Replication Timing in Intact Root Tips -- Assaying Cyclin-Dependent...

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Table of Contents: ... -- Measuring autophagic cargo flux with Keima-based probes -- Detection of nuclear biomarkers for chromosomal instability -- Analysis of autophagic vesicles in mitotic cells -- Approaches and protocols to analyze autophagy and its role in death of apoptosis...

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Table of Contents: ...Nanopore Long Read DNA Sequencing of Protozoan Parasites: Hybrid Genome Assembly of Trypanosoma cruzi -- Chromosomes Conformation Capture Coupled with Next Generation Sequencing (Hi-C) in Plasmodium falciparum -- Sequencing and Reconstructing Helminth...

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