Chromatin

Generating sequencing-based DNA methylation maps from low DNA input samples.- Data analysis of DNA methylation Epigenome-Wide Association Studies (EWAS); A guide to the principles of best practice.- Next-generation bisulfite sequencing for targeted DNA methylation analysis.- Editing of DNA Methylation Patterns Using CRISPR-Based Tools.- Nanopore sequencing and data analysis for base-resolution genome-wide 5-methylcytosine profiling.- Chromatin immunoprecipitation sequencing (ChIP-seq) protocol for small amounts of frozen biobanked cardiac tissue.- A robust protocol for investigating the cohesin complex by ChIP-sequencing.- Epi-Decoder: decoding the local proteome of a genomic locus by massive parallel chromatin immunoprecipitation combined with DNA-barcode sequencing.- A protocol for studying transcription factor dynamics using fast Single-Particle Tracking and Spot-On model-based analysis.- Characterization of mammalian regulatory complexes at single locus resolution using TINC.- Profiling protein-DNA interactions cell-type-specifically with Targeted DamID.- Genome-wide mapping and microscopy visualization of protein-DNA interactions by pA-DamID.- The dCypher approach to interrogate chromatin reader activity against post-translational modification-defined 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 sequencing (4C-seq) in primary adherent cells.- Mammalian Micro-C-XL.- In situ HiC.- LncRNA-chromatin pull-down using biotin-conjugated DNA probes.- Super-resolution microscopy for visualization of physical contacts between chromosomes at nanoscale resolution.