TL;DR
The protocols for ChIP-seq are outlined, including immunoprecipitation, library preparation for high-throughput sequencing, and bioinformatics analysis of sequencing data that the authors routinely perform in their lab groups, and include troubleshooting tips for each step.
A comprehensive ATAC-seq protocol that is utilized by laboratories, along with detailed troubleshooting steps at each point, is outlined in the hopes that it will aid other researchers in utilizing this tool to the fullest capability.
The genome-wide profiling of histone modifications by CUT&Tag in cancer tissues, a relatively new method for profiling diverse chromatin components, is described.
A detailed CUT&RUN protocol from sample collection through data analysis, including best practices and defined controls to ensure specific, efficient, and robust target profiling is provided.
This chapter describes the experimental setup and provides a detailed protocol for performing chromatin immunoprecipitation in Ustilago maydis or related smut fungi.
A proximity-labeling protocol for identifying the chromatin-dependent protein interactome associated with specific chromatin marks, termed ChromID, which preserves native chromatin organization and captures transient chromatin-associated interactions that are often lost during conventional affinity purification workflo...
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