ChIP-Seq Library Prep Using the Pippin Prep DNA Size Selection System
10 Sept 2013ChIP-Seq analysis is valuable for identifying genomic DNA sequences that are associated with immunoprecipitable proteins, such as modified histones or transcription factors, in vivo. One of the technically challenging and labor-intensive steps in ChIP-Seq is the size selection of DNA fragments during the NGS library construction and is a source of sample loss and sample cross contamination. This application note compares two methods for the size-selection step.
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Pippin Prep DNA Size Selection System
Sage ScienceThe Pippin Prep is a preparative electrophoresis platform for collection of size-selected DNA samples. The system automates DNA size selection using disposable, pre-cast agarose cassettes to extract fractions according to user-defined software input. Samples are electro-eluted from agarose and collected in buffer. The platform is used for the construction of next-gen sequencing libraries. The system collects fragments (depending on gel type) between 90 bp- 8kb. A higher quality of sample can be extracted, more reproducibly and with no cross-contamination, when compared to manual gel purification methods.