Integration of clinical characteristics, lab tests and a deep learning CT scan analysis to predict severity of hospitalized COVID-19 patients.

The SARS-COV-2 pandemic has put pressure on Intensive Care Units, and made the identification of early predictors of disease severity a priority. We collected clinical, biological, chest CT scan data, and radiology reports from 1,003 coronavirus-infected patients from two French hospitals. Among 58 variables measured at admission, 11 clinical and 3 radiological variables were associated with severity. Next, using 506,341 chest CT images, we trained and evaluated deep learning models to segment the scans and reproduce radiologists annotations. We also built CT image-based deep learning models that predicted severity better than models based on the radiologists reports. Finally, we showed that adding CT scan information--either through radiologist lesion quantification or through deep learning--to clinical and biological data, improves prediction of severity. These findings show that CT scans contain novel and unique prognostic information, which we included in a 6-variable ScanCov severity score.