IWS1 is known to be a transcriptional regulator in mammalian cells, but its function in apicomplexan parasites is unknown. To elucidate the role of IWS1 in the transcriptional regulation of genes in Toxoplasma gondii (T. gondii), an Apicomplexan parasite, we performed genome-wide chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) based upon the binding site information for IWS1 in the genome of T. gondii. First, we generated T. gondii expressing the N-terminally YFP-tagged IWS1. The YFP-IWS1 was detected sorely in the parasitic nucleus but not in the cytosol, whereas the control YFP alone was observed in both regions. Next, we performed ChIP-seq by anti-GFP antibody. The obtained DNA was sequenced with the Nova seq6000 sequencer, and reads were mapped onto the T. gondii GT-I genome sequence. Overall design: Three biological replicates. Chromatin immunoprecipitation profiles were generated by high throughput sequencing using Novaseq6000 system.