Deep learning with multimodal representation for pancancer prognosis prediction.
Journal:
Bioinformatics (Oxford, England)
Published Date:
Jul 15, 2019
Abstract
MOTIVATION: Estimating the future course of patients with cancer lesions is invaluable to physicians; however, current clinical methods fail to effectively use the vast amount of multimodal data that is available for cancer patients. To tackle this problem, we constructed a multimodal neural network-based model to predict the survival of patients for 20 different cancer types using clinical data, mRNA expression data, microRNA expression data and histopathology whole slide images (WSIs). We developed an unsupervised encoder to compress these four data modalities into a single feature vector for each patient, handling missing data through a resilient, multimodal dropout method. Encoding methods were tailored to each data type-using deep highway networks to extract features from clinical and genomic data, and convolutional neural networks to extract features from WSIs.