To improve the informativity of DNA methylation-based detection and/or prediction of metachronous metastatic disease, we biometrically analyzed the KIRC database and identified internexin neuronal intermediate filament protein alpha (INA), nescient helix–loop–helix 2 (NHLH2), and thrombospondin 4 (THBS4) as candidate genes showing an association between methylation and distant metastasis. Here, NHLH2 is linked to metastatic neoplasm.