Title: GRIPseq data for S. Purpuratus 24 hpf

Type Dataset Tulin, Sarah, Barsi, Julius C., Bocconcelli, Carlo, Smith, Joel (2015-01-19): GRIPseq data for S. Purpuratus 24 hpf. Dataset. https://darchive.mblwhoilibrary.org/handle/1912/7101

Authors: Tulin, Sarah ; Barsi, Julius C. ; Bocconcelli, Carlo ; Smith, Joel ;

Links

• Item record in Woods Hole Open Access Server
• Digital object URL

Summary

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.

More information

• URI: https://hdl.handle.net/1912/7101
• DOI: 10.1575/1912/7101
• Language: en_US

Subjects

• Gene regulation, Transcription factor binding site, Pol II, ChIPseq, Sea urchin

Dates

• accessioned: January 19, 2015
• available: August 01, 2015
• Publication date: January 19, 2015

Notes

Format

electronic resource

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