Chromatin immunoprecipitation coupled with sequencing (ChIP-seq) is a genomics and
epigenomics method used to study DNA-protein interactions. ChIP-Seq analysis can provide
information about the chromatin state and transcription factor binding in
a determined gene or loci.
Step 1 - Preprocess Reads
Step 2 - Quality Control Analysis
Step 3 - Mapping
Step 4 - Aligned Reads Quality Check
Step 5 - Peak Calling
Fragment estimation
Peak identification
Table with peak information such as enrichment score, -log10p-value,
-log10q-value and the position to peak start.
At USU’s high-performance computing and bioinformatics facility, we have developed a series of parallel, multicore, CPU-based,
open-source pipelines for large-scale -omics data analysis, which enables efficient and parallel analysis of multiple datasets
in a short period of time.
