The Database of Kashiwa Encyclopedia for human genome mutations in Regulatory regions and their Omics contexts (DBKERO) stores transcriptome information with a catalogue of genomic variations including public SNP data and epigenome information to enable further in-depth analyses on the disease-causing molecular mechanisms. Recent additions include genomic variation datasets and epigenome variation datasets focusing on the Japanese population. These datasets were collected as a series of genome-wide association studies and as part of International Human Epigenome Consortium (IHEC) projects. The goal is to have this database serve as a model case for the genomic, epigenomic and transcriptomic variations occurring in particular ethnic backgrounds and underlying various diseases. Clinical samples data were also associated with data from various model systems such as drug perturbation datasets using cultured cancer cells.