Identify clear cell renal cell carcinoma related genes by gene network

Machine-learning based radiogenomics analysis of MRI features and metagenes in glioblastoma multiforme patients with different survival time

Background

This study aimed to examine multi‐dimensional MRI features’ predictability on survival outcome and associations with differentially expressed Genes (RNA Sequencing) in groups of glioblastoma multiforme (GBM) patients.

Methods

Radiomics features were extracted from segmented lesions of T2‐FLAIR MRI data of 137 GBM patients. Radiomics features include intensity, shape and textural features in seven classes were included in the analysis. Patients were divided into two groups depending on their survival time (shorter or longer than 1‐year survival). Four different machine learning algorithms were implemented to construct the prediction models. Features with top importance (importance >0.04) were selected to construct the prediction model using the model with the best performance. The interactions between image features and genomics were then analysed with Pearson's correlation analysis.

Results

The GBDT model with 72 features with highest importance had the highest accuracy of 0.81 on both short and long survival time classes, and the area under the curve (AUC) of the receiver operative characteristic (ROC) of the short and long survival time class were 0.79 and 0.81. Six metagenes showed significant interactive effect (P < 0.05), and Pearson's correlation analysis revealed that three of these metagenes (TIMP1,ROS1 EREG) showed moderate (0.3 < |r| < 0.5) or high correlation (|r| > 0.5) with image features.

Conclusion

Radiogenomics analysis shows that MRI features are predictive of survival outcomes, and image features are highly associated with selective metagenes. Radiogenomics analysis is a useful method for optimizing clinical diagnosis and selecting effective treatments.