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Repurposing the Public BraTS Dataset for Postoperative Brain Tumour Treatment Response Monitoring

Authors: Peter Jagd Sørensen; Claes Nøhr Ladefoged; Vibeke Andrée Larsen; Flemming Littrup Andersen; Michael Bachmann Nielsen; Hans Skovgaard Poulsen; Jonathan Frederik Carlsen; +1 Authors

Repurposing the Public BraTS Dataset for Postoperative Brain Tumour Treatment Response Monitoring

Abstract

The Brain Tumor Segmentation (BraTS) Challenge has been a main driver of the development of deep learning (DL) algorithms and provides by far the largest publicly available expert-annotated brain tumour dataset but contains solely preoperative examinations. The aim of our study was to facilitate the use of the BraTS dataset for training DL brain tumour segmentation algorithms for a postoperative setting. To this end, we introduced an automatic conversion of the three-label BraTS annotation protocol to a two-label annotation protocol suitable for postoperative brain tumour segmentation. To assess the viability of the label conversion, we trained a DL algorithm using both the three-label and the two-label annotation protocols. We assessed the models pre- and postoperatively and compared the performance with a state-of-the-art DL method. The DL algorithm trained using the BraTS three-label annotation misclassified parts of 10 out of 41 fluid-filled resection cavities in 72 postoperative glioblastoma MRIs, whereas the two-label model showed no such inaccuracies. The tumour segmentation performance of the two-label model both pre- and postoperatively was comparable to that of a state-of-the-art algorithm for tumour volumes larger than 1 cm3. Our study enables using the BraTS dataset as a basis for the training of DL algorithms for postoperative tumour segmentation.

Keywords

BraTS, Automatic, Computer applications to medicine. Medical informatics, R858-859.7, Datasets as Topic, brain tumour segmentation, Article, Deep Learning, Brain tumour segmentation, Treatment monitoring, magnetic resonance imaging, Magnetic resonace imaging, postoperative, Humans, Brain Tumor Segmentation Challenge, Postoperative, annotation protocol, Brain Neoplasms, Magnetic Resonance Imaging, Annotation protocol, Deep learning algorithms, treatment monitoring, automatic, Glioblastoma, Algorithms, MRI, deep learning algorithm

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
4
Top 10%
Average
Average
Green
gold
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