Comment[GEAAccession] E-GEAD-324 MAGE-TAB Version 1.1 Investigation Title CIRA-seq analysis of the HEK293T cell line Experiment Description CpG island recovery assay of HEK293T cells was performed using unmethyl collector kit (Activ motif). The precipitated DNAs using recombinant CXXC domain were analyzed by deep sequencing along with the input sample. Experimental Design binding site identification design Experimental Factor Name methylation Experimental Factor Type methylation Person Last Name Kanai Yokoyama Person First Name Akinori Akihiko Person Affiliation Tsuruoka Metabolomics Laboratory, National Cancer Center Person Roles submitter submitter Protocol Name P-GEAD-256 P-GEAD-257 P-GEAD-258 P-GEAD-259 P-GEAD-260 Protocol Type sample collection protocol nucleic acid extraction protocol nucleic acid library construction protocol nucleic acid sequencing protocol normalization data transformation protocol Protocol Description HEK293T cells are culture in Dulbecco's Modified Eagle's Medium (DMEM) supplemented with 10% fetal bovine serum (FBS) and penicillin-streptomycin (PS).Cell culture was performed in 5% CO2 37 degree C. The cells were washed with PBS once and harvested by a cell lifter.The cell suspensions were washed with PBS once and subjected to DNA preparation. DNAs were prepared using Dneasy Blood and Tissue kit (Qiagen). CpG island recovery assays for unmethylated CpGs (CIRA) were performed using the Unmethyl Collector kit (Active Motif) The libralies were constructed using a TruSeq ChIP Sample Prep Kit (iIllumina) following the manufacturer's instructions. The libraries were sequenced for 50 cycles on an Illumina HiSeq 2500 sequencer with 50-bp single-end reads. Sequenced reads were mapped to human genome assembly hg19 using BWA 0.7.5. The BAM alignment was converted to the bBigWig coverage files using bam2wig 1.6 and wigToBigWig. SDRF File E-GEAD-324.sdrf.txt Comment[AEExperimentType] methylation profiling by high throughput sequencing Comment[BioProject] PRJDB8611