By combining chromatin immunoprecipitation (ChIP) assays with sequencing, ChIP sequencing (ChIP-Seq) is a powerful method for identifying genome-wide DNA binding sites for transcription factors and other proteins. Following ChIP protocols, DNA-bound protein is immunoprecipitated using a specific antibody. The bound DNA is then coprecipitated, purified, and sequenced.
The application of next-generation sequencing (NGS) to ChIP has revealed insights into gene regulation events that play a role in various diseases and biological pathways, such as development and cancer progression. ChIP-Seq enables thorough examination of the interactions between proteins and nucleic acids on a genome-wide scale.
ChIP-Seq identifies the binding sites of DNA-associated proteins and can be used to map global binding sites for a given protein. Unlike arrays and other approaches used to investigate the epigenome, which are inherently biased because they require probes derived from known sequences, ChIP-Seq does not require prior knowledge. ChIP-Seq delivers genome-wide profiling with massively parallel sequencing, generating millions of counts across multiple samples for cost-effective, precise analysis.
Illumina sequencing by synthesis (SBS) chemistry is the most widely adopted NGS technology, generating approximately 90% of global sequencing data.*
In addition to industry-leading data quality, Illumina offers integrated workflows that simplify sequencing, from library preparation to data analysis.
Click on the below to view products for each workflow step.
Focused power to sequence 1–6 ChIP-Seq samples per run.NextSeq Series
Flexible power to sequence 8–24 ChIP-Seq samples in parallel.
Compare sequencing platforms and identify the best system for your lab and applications.Sequencing Reagents
Find kits that include sequencing reagents, flow cells, and/or buffers tailored to each Illumina sequencing system.
Note: ChIP-Seq may require only a few reads (5-15 million) for a highly targeted transcription factor, and many more reads (50 million) for a ubiquitous protein such as a histone mark pull-down.
Identifies transcription factor binding sites using MACS2 and discovers motifs within the peaks using HOMER.Genomatix Pathway System (GePS)
Generation and visualization of pathways, networks, and processes.
Studies of epigenetic changes in cancer, such as aberrant methylation and altered transcription factor binding, can offer insights into important tumorigenic pathways. Learn more about cancer epigenetics.
Analyzing gene expression and regulation provides visibility into how genomic and environmental changes contribute to common disease. Learn more about gene expression profiling and regulation studies.
*Data calculations on file. Illumina, Inc., 2015