Chromatin Immunoprecipitation and Assay for Transposase-Accessible Chromatin followed by high-throughput sequencing (ChIp-Seq and ATAC-Seq, respectively) are two popular technologies used to study epigenetic regulations. ChIP-Seq allows the identification of genomic regions bound by a specific protein including histones, while ATAC-Seq evaluates the openness of heterochromatin regions accessible for epigenetic regulation. At Diagenode we have optimized the computing parameters to accurately detect binding sites and accessible chromatin regions. Specific parameters can be customized depending on the specifications of each project.
You can also consult with us for sequencing strategies to determine sequencing depth, read length and pairing mode that will vary greatly depending on the protein of interest and the biological question.
This analysis provides information on each region specifically bound by the targeted protein (peak) as well as its level of enrichment (ChIP-seq) or openness (ATAC-seq).
If you require a type of analysis that is not in the previous list, please consult with our expert bioinformatics team.