Intrinsically disordered regions and proteins are common. The protein has not traditionally defined structure in these regions, instead can adopt different conformations and often interact with many partners. PON-IDR is the first dedicated predictor for amino acid tolerance/pathogenicity due to substitutions. The method is based on gradient boost decision tree (GBDT) and has a good performance in blind test analysis. The method was developed in collaboration between the groups of Prof. Mauno Vihinen in Lund University and Assoc. Prof. Yang Yang in Soochow University.