Fully automated Res3DNet model to predict IDH mutation of gliomas from whole-brain MRI free of tumor segmentation.

Journal: iScience
Published Date: Dec 9, 2025

Abstract

Accurate prediction of IDH mutation status in gliomas is critical for guiding diagnosis, prognosis, and treatment planning. We enrolled 2,537 preoperative MRI of glioma patients (mean age 55.91 ± 14.79, 1,063 females) from 11 different datasets, consisting of 1,382 patients (mean age 58.26 ± 14.38, 548 females) in training set, 346 patients (mean age 57.43 ± 14.04, 141 females) in internal validation set, and 809 patients (mean age 53.92 ± 14.04, 374 females) in external test set, including 242 patients from The Cancer Genome Archive (TCGA) dataset. A fully automated Res3DNet model was established for isocitrate dehydrogenase (IDH) gene prediction. Four radiologists also read images from TCGA test dataset as a comparison with the deep learning model. Our Res3DNet model achieved AUCs of 0.946 (internal validation), 0.872 (external test), and 0.912 (TCGA test), with corresponding accuracies of 0.925, 0.806, and 0.840, respectively, outperforming ResNet model, I3D model, transformer model, and four radiologists.

Authors

  • Zhengyang Zhu
    Department of Forensic Pathology, College of Forensic Medicine, Xi'an Jiaotong University, Xi'an 710061, Shaanxi, People's Republic of China.
  • Yuying Liu
    Guangxi Medical University, Nanning Guangxi, 530021, P.R.China.
  • Yang Song
    Biomedical and Multimedia Information Technology (BMIT) Research Group, School of IT, University of Sydney, NSW 2006, Australia. Electronic address: [email protected].
  • Jianan Zhou
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Sixuan Chen
    Department of Diagnostic Radiology, Jinling Hospital, Medical School of Nanjing University, Nanjing 210002, China.
  • Meiping Ye
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Zhiqiang Zhang
    Suzhou Institute of Biomedical Engineering and Technology, Chinese Academy of Sciences, Suzhou 215163, China.
  • Jiaming Lu
    Department of Radiology, The Affiliated Drum Tower Hospital, Nanjing University Medical School, Nanjing, 210000, Jiangsu, China.
  • Xin Li
    Veterinary Diagnostic Center, Shanghai Animal Disease Control Center, Shanghai, China.
  • Xinru Xu
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Cong Long
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Linqing Fu
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Yajing Zhu
    12 Sigma Technologies, NO. 420 Fenglin Road, Xuhui District, Shanghai, China.
  • Xu Yang
    Department of Food Science and Technology, The Ohio State University, Columbus, OH, United States.
  • Weiping Li
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Yijun Bai
    Guangdong Tianhe Branch of China Telecom, Guangzhou 510632, Guangdong, China.
  • Shunshun Du
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Huiquan Yang
    Department of Radiology, Nanjing Drum Tower Hospital, Affiliated Hospital of Medical School, Nanjing University, Nanjing 210008, China.
  • Xin Zhang
    First Department of Infectious Diseases, The First Affiliated Hospital of China Medical University, Shenyang, China.
  • Wu-Jun Li
    National Institute of Healthcare Data Science at Nanjing University, Nanjing, Jiangsu 210008, China; National Key Laboratory for Novel Software Technology, Department of Computer Science and Technology, Nanjing University, Nanjing, Jiangsu 210008, China; Center for Medical Big Data, Nanjing Drum Tower Hospital, Affiliated Drum Tower Hospital, Medical School of Nanjing University, Nanjing, Jiangsu 210008, China. Electronic address: [email protected].
  • Bing Zhang
    School of Information Science and Engineering, Yanshan University, Hebei Avenue, Qinhuangdao, 066004, China.

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