Automatic left ventricle volume calculation with explainability through a deep learning weak-supervision methodology. (September 2021)

• Record Type: Journal Article
• Authors: Pérez-Pelegrí, Manuel; Monmeneu, José V.; López-Lereu, María P.; Pérez-Pelegrí, Lucía; Maceira, Alicia M.; Bodí, Vicente; Moratal, David
• Is Part Of: Computer methods and programs in biomedicine. Volume 208(2021)
• Publication Date: 2021-09
• Subjects: Magnetic resonance imaging -- Deep learning -- Left ventricle -- Weak supervision -- Explainability -- Segmentation; Medicine -- Computer programs -- Periodicals; Biology -- Computer programs -- Periodicals; Computers -- Periodicals; Medicine -- Periodicals; Médecine -- Logiciels -- Périodiques; Biologie -- Logiciels -- Périodiques; Biology -- Computer programs; Medicine -- Computer programs; Periodicals; Electronic journals; 610.28
• DOI: 10.1016/j.cmpb.2021.106275
• Languages: English
• ISSNs: 0169-2607

Abstract

Highlights: Left ventricle volumes in MRI can be automatically estimated by neural networks. Expainability is fundamental when offering automatic results by neural networks. Weak-supervision methods can be used to offer explainability through segmentation. Left ventricle segmentations can be obtained when only volume values are available. Weak-supervision can expand the number of useful databases of medical images. Abstract: Background and objective: Magnetic resonance imaging is the most reliable imaging technique to assess the heart. More specifically there is great importance in the analysis of the left ventricle, as the main pathologies directly affect this region. In order to characterize the left ventricle, it is necessary to extract its volume. In this work we present a neural network architecture that is capable of directly estimating the left ventricle volume in short axis cine Magnetic Resonance Imaging in the end-diastolic frame and provide a segmentation of the region which is the basis of the volume calculation, thus offering explainability to the estimated value. Methods: The network was designed to directly target the volumes to estimate, not requiring any labeled segmentation on the images. The network was based on a 3D U-net with extra layers defined in a scanning module that learned features like the circularity of the objects and the volumes to estimate in a weakly-supervised manner. The only targets defined were the left ventricle volumes and the circularity of the object detected through the estimation of the π value derived from its shape. We had access to 397 cases corresponding to 397 different subjects. We randomly selected 98 cases to use as test set. Results: The results show a good match between the real and estimated volumes in the test set, with a mean relative error of 8% and a mean absolute error of 9.12 ml with a Pearson correlation coefficient of 0.95. The derived segmentations obtained by the network achieved Dice coefficients with a mean value of 0.79. Conclusions: The proposed method is capable of obtaining the left ventricle volume biomarker in the end-diastole and offer an explanation of how it obtains the result in the form of a segmentation mask without the need of segmentation labels to train the algorithm, making it a potentially more trustworthy method for clinicians and a way to train neural networks more easily when segmentation labels are not readily available.