Neuroblastoma (NB) most often occurs in young children, and accurate diagnosis of NB with anatomical MRI remains challenging. Here, we explored the potential of amide proton transfer (APT) imaging in evaluating the risk of pediatric abdominal NB. A total of 25 patients were enrolled, including 12 with low-risk NB and 13 with high-risk NB. An automatic shrinkage algorithm was applied to the initial region of interest delineated by an experienced radiologist to focus on the most aggressive part of tumors. We obtained an AUC of 0.917 for stratifying the risk of NB with APT, demonstrating the potential of clinical application.