A ChIP-seq test dataset

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Neches, Russell; Facciotti, Marc; Wilbanks, Elizabeth G.; Seitzer, Phillip M. (2012): A ChIP-seq test dataset. figshare.

http://dx.doi.org/10.6084/m9.figshare.98106
Retrieved 02:58, Dec 23, 2014 (GMT)

Description

This is a testing dataset for ChIP-seq (chromatin Immunoprecipitation sequencing) peak callers. It was made from a his-tagged tfbD pulldown in Halobacterium salinarum, sequenced on the Illumina GAII. The reads were mapped using bowtie to a cut-down chromosome and one plasmid, and unmapped reads were discarded. 

 

This is a fairly challenging dataset. It contains several genomic features that can potentially break peak-calling algorithms, including transposons, copy number variations, and indels with resepect to the reference genome used.

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