GRIPseq data for S. Purpuratus 24 hpf

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DOI
10.1575/1912/7101
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Keywords
Gene regulation
Transcription factor binding site
Pol II
ChIPseq
Sea urchin
Abstract
This dataset is the result of a new method for identifying putative cis-regulatory elements genome wide, termed GRIPseq for Genome-wide Regulatory element Immunoprecipitation. Our protocol combines elements of chromatin conformation capture (e.g., 3C, 4C, Hi-C), chromatin immunoprecipitation, and paired-end high-throughput sequencing with molecular tools that enrich for active cis-regulatory elements across the genome. Our pioneer dataset, available to the community, derives from the purple sea urchin, Stronglyocentrotus purpuratus, mesenchyme blastula embryos collected at 24 hpf. We benchmark our results against independent findings, i.e., rigorously tested cis-elements previously identified and find good congruence at the loci we have investigated, and in particular we find a strong signal-to-noise ratio for known distal elements, marking an improvement over existing methods. A corollary of this approach is the ability, in many cases, to link cis-regulatory elements to the genes they regulate.
Description
This database contains the sequencing reads and mapped reads for GRIPseq 24hpf for S. Purpurats. README.txt is a guide to using the files in the database.
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