Promoter Capture module (human)

Separate Arima Human Promoter Capture module to be used in the Arima Capture-HiC Workflow

Product Description

The Arima Capture-HiC+ platform technology enables researchers to characterize the spatial, 3-dimensional properties of genomic regions of interest. Researchers now have the ability to compare and contrast the regulatory landscape of different tissues/samples with Promoter Capture. This separate Arima Human Promoter Capture module can be used together with the Arima HiC+ Kit (A51008-ARI) and the Arima Library Prep kit (A303011-ARI) as described in the Arima Capture-HiC Workflow below.

Arima Capture-HiC Workflow:

Arima Capture-HiC is an experimental workflow that captures the sequence and structure (threedimensional conformation) of genomes. Arima Capture-HiC has been successfully performed on a wide-range of species from the plant and animal kingdoms. Chromatin from the sample source (tissues, cell lines, or blood) is first crosslinked to preserve the genome sequence and structure. Using the Arima HiC+ Kit the crosslinked chromatin is then digested with a restriction enzyme (RE) cocktail. The 5’-overhangs are then filled in, causing the digested ends to be labeled with a biotinylated nucleotide. Next, spatially proximal digested ends of DNA are ligated, capturing the sequence and structure of the genome. The ligated DNA is then purified, producing pure proximally-ligated DNA. The proximally-ligated DNA is then fragmented, and the biotinylated fragments are enriched. The enriched fragments are then subjected to a custom library preparation protocol utilizing the Arima Library Prep Module. The interactions of interest are enriched using biotinylated RNA probes from the Arima Human Promoter Panel.

Human Promoter Panel Probe Design:

The Arima Human Promoter Capture Probes were made to the promoters of 23,711 genes from the human GRCh37 Ensemble database, version 87, including: 18,741 protein-coding genes, 84 antisense RNA’s, 107 lincRNA’s, 1,878 miRNA’s, 938 snoRNA’s, and 1,898 snRNA’s. Capture probes were designed to the restriction fragment of each of the promoters as well as to one restriction fragment up-stream and one fragment downstream of the fragment containing the promoter. The probes were manufactured using 1x tiling with repeat masking and balance boosting.