A machine learning-based radiomics model for prediction of tumor mutation burden in gastric cancer

• Published in: Frontiers in genetics Vol. 14; p. 1283090
• Main Authors: Ma, Tingting, Zhang, Yuwei, Zhao, Mengran, Wang, Lingwei, Wang, Hua, Ye, Zhaoxiang
• Format: Journal Article
• Language: English
• Published: Frontiers Media S.A 06-11-2023
• Subjects: computed tomograph; gastric cancer; machine learning; radiomics; tumor mutation burden
• ISSN: 1664-8021; 1664-8021
• DOI: 10.3389/fgene.2023.1283090

Purpose:
To evaluate the potential of machine learning (ML)-based radiomics approach for predicting tumor mutation burden (TMB) in gastric cancer (GC).
Methods:
The contrast enhanced CT (CECT) images with corresponding clinical information of 256 GC patients were retrospectively collected. Patients were separated into training set (
n
= 180) and validation set (
n
= 76). A total of 3,390 radiomics features were extracted from three phases images of CECT. The least absolute shrinkage and selection operator (LASSO) model was used for feature screening. Seven machine learning (ML) algorithms were employed to find the optimal classifier. The predictive ability of radiomics model (RM) was evaluated with receiver operating characteristic. The correlation between RM and TMB values was evaluated using Spearman’s correlation coefficient. The explainability of RM was assessed by the Shapley Additive explanations (SHAP) method.
Results:
Logistic regression algorithm was chosen for model construction. The RM showed good predictive ability of TMB status with AUCs of 0.89 [95% confidence interval (CI): 0.85–0.94] and 0.86 (95% CI: 0.74–0.98) in the training and validation sets. The correlation analysis revealed a good correlation between RM and TMB levels (correlation coefficient: 0.62,
p
< 0.001). The RM also showed favorable and stable predictive accuracy within the cutoff value range 6–16 mut/Mb in both sets.
Conclusion:
The ML-based RM offered a promising image biomarker for predicting TMB status in GC patients.