ChIP-seq is used to precisely identify the target sites of a wide variety of DNA binding proteins such as polymerases, transcription factors, parts of the transcriptional machinery and more. Protein-DNA complexes are chemically cross-linked and specifically precipitated from the sample. This is achieved using an antibody specific for the DNA binding protein of interest (this step is not carried out by Micromon). The DNA is sheared and any material that is not bound to the antibodies is removed. After reversing the cross-links, the DNA recovered from this process is used to prepare a sequencing library. Sequencing reads are aligned to the genome reference and the data is graphed with read-count on the Y-axis and chromosomal location on the X-axis. Peaks in the graph reveal the location of the protein binding sites.