Deep learning automates bidimensional and volumetric tumor burden measurement from MRI in pre- and post-operative glioblastoma patients

• Published in: arXiv.org 2022-09
• Main Authors: Nalepa, Jakub, Kotowski, Krzysztof, Machura, Bartosz, Adamski, Szymon, Bozek, Oskar, Eksner, Bartosz, Kokoszka, Bartosz, Pekala, Tomasz, Radom, Mateusz, Strzelczak, Marek, Zarudzki, Lukasz, Krason, Agata, Arcadu, Filippo, Tessier, Jean
• Format: Article
• Language: English
• Subjects: Annotations; Automation; Complexity; Deep learning; Edema; Health services; Heterogeneity; Image segmentation; Magnetic resonance imaging; Qualitative analysis; Statistical analysis; Tumors
• ISSN: 2331-8422

Tumor burden assessment by magnetic resonance imaging (MRI) is central to the evaluation of treatment response for glioblastoma. This assessment is complex to perform and associated with high variability due to the high heterogeneity and complexity of the disease. In this work, we tackle this issue and propose a deep learning pipeline for the fully automated end-to-end analysis of glioblastoma patients. Our approach simultaneously identifies tumor sub-regions, including the enhancing tumor, peritumoral edema and surgical cavity in the first step, and then calculates the volumetric and bidimensional measurements that follow the current Response Assessment in Neuro-Oncology (RANO) criteria. Also, we introduce a rigorous manual annotation process which was followed to delineate the tumor sub-regions by the human experts, and to capture their segmentation confidences that are later used while training the deep learning models. The results of our extensive experimental study performed over 760 pre-operative and 504 post-operative adult patients with glioma obtained from the public database (acquired at 19 sites in years 2021-2020) and from a clinical treatment trial (47 and 69 sites for pre-/post-operative patients, 2009-2011) and backed up with thorough quantitative, qualitative and statistical analysis revealed that our pipeline performs accurate segmentation of pre- and post-operative MRIs in a fraction of the manual delineation time (up to 20 times faster than humans). The bidimensional and volumetric measurements were in strong agreement with expert radiologists, and we showed that RANO measurements are not always sufficient to quantify tumor burden.