Histopathological image and gene expression pattern analysis for predicting molecular features and prognosis of head and neck squamous cell carcinoma

Abstract

Background

Histopathological image features offer a quantitative measurement of cellular morphology, and probably help for better diagnosis and prognosis in head and neck squamous cell carcinoma (HNSCC).

Methods

We first used histopathological image features and machine‐learning algorithms to predict molecular features of 212 HNSCC patients from The Cancer Genome Atlas (TCGA). Next, we divided TCGA‐HNSCC cohort into training set ( n = 149) and test set ( n = 63), and obtained tissue microarrays as an external validation set ( n = 126). We identified the gene expression profile correlated to image features by bioinformatics analysis.

Results

Histopathological image features combined with random forest may predict five somatic mutations, transcriptional subtypes, and methylation subtypes, with area under curve (AUC) ranging from 0.828 to 0.968. The prediction model based on image features could predict overall survival, with 5‐year AUC of 0.831, 0.782, and 0.751 in training, test, and validation sets. We next established an integrative prognostic model of image features and gene expressions, which obtained better performance in training set (5‐year AUC = 0.860) and test set (5‐year AUC = 0.826). According to histopathological transcriptomics risk score (HTRS) generated by the model, high‐risk and low‐risk patients had different survival in training set (HR = 4.09, p < 0.001) and test set (HR=3.08, p = 0.019). Multivariate analysis suggested that HTRS was an independent predictor in training set (HR = 5.17, p < 0.001). The nomogram combining HTRS and clinical factors had higher net benefit than conventional clinical evaluation.

Conclusions

Histopathological image features provided a promising approach to predict mutations, molecular subtypes, and prognosis of HNSCC. The integration of image features and gene expression data had potential for improving prognosis prediction in HNSCC.

Abstract

This study extracted histopathological image features of head and neck squamous cell carcinoma, then used image features and machine learning to build prediction models for mutations, molecular subtypes and prognosis. Moreover, we investigated the correlation between image features and gene expressions, and constructed an integrative model to improve survival prediction. Our study indicated the clinical value of histopathological image features in predicting molecular features and prognosis.