2019-05-24-dorent19a.md

section	title	abstract	layout	series	id	month	tex_title	firstpage	lastpage	page	order	cycles	bibtex_author	author	date	address	publisher	container-title	volume	genre	issued	pdf	extras
Contributed Papers	Learning joint lesion and tissue segmentation from task-specific hetero-modal datasets	Brain tissue segmentation from multimodal MRI is a key building block of many neuroscience analysis pipelines. It could also play an important role in many clinical imaging scenarios. Established tissue segmentation approaches have however not been developed to cope with large anatomical changes resulting from pathology. The effect of the presence of brain lesions, for example, on their performance is thus currently uncontrolled and practically unpredictable. Contrastingly, with the advent of deep neural networks (DNNs), segmentation of brain lesions has matured significantly and is achieving performance levels making it of interest for clinical use. However, few existing approaches allow for jointly segmenting normal tissue and brain lesions. Developing a DNN for such joint task is currently hampered by the fact that annotated datasets typically address only one specific task and rely on a task-specific hetero-modal imaging protocol. In this work, we propose a novel approach to build a joint tissue and lesion segmentation model from task-specific hetero-modal and partially annotated datasets. Starting from a variational formulation of the joint problem, we show how the expected risk can be decomposed and optimised empirically. We exploit an upper-bound of the risk to deal with missing imaging modalities. For each task, our approach reaches comparable performance than task-specific and fully-supervised models.	inproceedings	Proceedings of Machine Learning Research	dorent19a	0	Learning joint lesion and tissue segmentation from task-specific hetero-modal datasets	164	174	164-174	164	false	Dorent, Reuben and Li, Wenqi and Ekanayake, Jinendra and Ourselin, Sebastien and Vercauteren, Tom	given family Reuben Dorent given family Wenqi Li given family Jinendra Ekanayake given family Sebastien Ourselin given family Tom Vercauteren	2019-05-24		PMLR	Proceedings of The 2nd International Conference on Medical Imaging with Deep Learning	102	inproceedings	date-parts 2019 5 24	http://proceedings.mlr.press/v102/dorent19a/dorent19a.pdf