Dataset features

Specifications


Application: ChIP-seq analysis
Number of samples: 39
Release date: Feb 17 2015
Last update date: Mar 5 2015
Access: Public
Chemicals: Nucleotides, Zinc
Dataset link Identification of in vivo binding sites of human C2H2-ZF proteins

Experimental Protocol


We expressed GFP-tagged C2H2-ZF proteins in stable transgenic HEK293 cells. Chromatin immunoprecipitation was performed as described before (Schmidt et al., Methods, 2009), and ChIP samples along with several control samples from different experimental batches were sequenced on Illumina HiSeq 2500. Reads were mapped to hg19 (GRCh37) assembly, and peaks were identified by MACS using an experiment-specific background that controls for various biases, such as the Sono-Seq effect as well as potential co-purification of targets of other (interacting) proteins.

Repositories


GEO

GSE58341

ArrayExpress

E-GEOD-58341

ENA

SRP043061

BioProject

PRJNA252040

Download