DNA Modifications

Modified Forms of Cytosine in Eukaryotes: DNA (De)Methylation and Beyond.- Evidence for Non-Cytosine Epigenetic DNA Modifications in Multicellular Eukaryotes: An Overview.- Mass Spectrometry-Based Analysis of DNA Modifications: Potential Applications in Basic Research and Clinic.- Mapping DNA Methylation in Mammals: The State of the Art.- Detection of Modified Bases in Bacteriophage Genomic DNA.- Liquid Chromatography–Mass Spectrometry Analysis of Cytosine Modifications.- Detection of DNA Methylation in Genomic DNA by UHPLC-MS/MS.- Quantification of DNA Modifications Using Two-Dimensional Ultra-Performance Liquid Chromatography Tandem Mass-Spectrometry (2D-UPLC–MS/MS).- MS Analysis of DNA Modifications in Urinary/Body Fluids.- Preparation of Internal Standards for 2D-UPLC–MS/MS Quantification of Non-Canonical DNA Bases.- Detection of TET-Oxidized 5-Methylcytosine Bases by Capillary Gel Electrophoresis.- Immunochemical Detection of Modified Cytosine Species in Mammalian PreimplantationEmbryos.- Immunochemical Detection of Modified Cytosine Species in Lampbrush Chromatin.- Detection of Low-Abundance DNA Modifications Using Signal Amplification-Based Immunocytochemistry.- Immunohistochemical Detection of Modified Cytosine Bases in Rodent Brain.- Immunohistochemical Detection of 5-Hydroxymethylcytosine and 5-Carboxylcytosine in Sections of Zebrafish Embryos.- Immunochemical Detection of Modified Species of Cytosine in Plant Tissues.- Antigen Retrieval for Immunostaining of Modified Cytosine Species.- Computational Analysis of DNA Modifications in Confocal Images.- Three-Dimensional Confocal Analysis of Chromosome Positioning Coupled with Immunofluorescence in Mouse Sperm Nuclei.- Analysis of 5-Hydroxymethyluracil Levels Using Flow Cytometry.- Hairpin-Bisulfite PCR.- Genome-Wide Mapping of DNA Methylation 5mC by Methylated DNA Immunoprecipitation (MeDIP)–Sequencing.- Analysis of 5-Carboxylcytosine Distribution Using DNA Immunoprecipitation.- High Resolution Analysis of5-Hydroxymethylcytosine by TET-Assisted Bisulfite Sequencing.- Oxidative Bisulfite Sequencing: An Experimental and Computational Protocol.- Bisulfite-Free Sequencing of 5-Hydroxymethylcytosine with APOBEC-Coupled Epigenetic Sequencing (ACE-Seq).- Single-Nucleotide-Resolution Sequencing of N6-Methyldeoxyadenosine.- Design and Application of DNA Modification-Specific Transcription-Activator-Like Effectors.- Notes on Functional Modules in the Assembly of CRISPR/Cas9-Mediated Epigenetic Modifiers.- Analyzing DNA-Immunoprecipitation Sequencing Data.- Bioinformatics Analysis of DNA Methylation through Bisulfite Sequencing Data.- Unified Analysis of Multiple ChIP-Seq Datasets.- Integrated Analysis of DNA Methylation, Hydroxymethylation, and Gene Expression Data Using ME-Class2.