Chromatin Immunoprecipitation Sequencing (ChIP-Seq) on the 5500xl Genetic Analyzer

Determining how proteins interact with DNA to regulate gene expression is essential for fully understanding many biological processes and for disease research.

ChIP-Seq technology can simplify your process for identifying and characterizing protein–DNA interactions.

ChIP (the capture specific DNA-bound proteins) followed by next-generation DNA sequencing allows you to map where proteins bind across the genome.

ChIP-Seq combines the quantification advantage afforded by high numbers of reads with the single-base resolution of sequencing.

Microarrays are restricted to the number of queried sequences and to the sequence content of the probes on a given array.

Direct sequencing of enriched fragments is more effective in determining protein binding sites in an unbiased, hypothesis-free manner.

• Hypothesis-free analysis—unbiased characterization of protein–DNA interactions across the genome without spacing limitations imposed by predetermined microarray probes
• Increased sensitivity—high numbers of uniquely mapping reads coupled with superior accuracy provide precise binding site localization and quantification
• Low sample input—perform genome-wide ChIP analysis from as little as 167 µg of fresh frozen tissue or 10,000 primary cells, with library construction requiring only 1 to 10 ng of DNA
• Multiplexing—the SOLiD^® Fragment Library Barcoding Kits allow you to sequence up to 50 ChIP-Seq libraries simultaneously in a single lane, reducing per-sample analysis cost and allowing you to analyze both normal and diseased research samples in a single run
• Faster sample prep—perform the ChIP workflow typically in just 5 hours, compared to 2 to 3 days for traditional ChIP. The MAGnify™ ChIP Kit is highly optimized using magnetic bead capture technology, and is compatible with multichannel pipetting, simplifying the workflow and improving reproducibility
• Simplified workflows—clear, optimized protocols and kits guide you from sample preparation through analysis, so you get results sooner