@conference {cBellvera, title = {Detection-aided liver lesion segmentation using deep learning}, booktitle = {ML4H: Machine Learning for Health Workshop at NIPS 2017}, year = {2017}, month = {11/2017}, abstract = {

A fully automatic technique for segmenting the liver and localizing its unhealthy tissues is a convenient tool in order to diagnose hepatic diseases and assess the response to the according treatments. In this work we propose a method to segment the liver and its lesions from Computed Tomography (CT) scans using Convolutional Neural Networks (CNNs), that have proven good results in a variety of computer vision tasks, including medical imaging. The network that segments the lesions consists of a cascaded architecture, which first focuses on the region of the liver in order to segment the lesions on it. Moreover, we train a detector to localize the lesions, and mask the results of the segmentation network with the positive detections. The segmentation architecture is based on DRIU, a Fully Convolutional Network (FCN) with side outputs that work on feature maps of different resolutions, to finally\  benefit from the multi-scale information learned by different stages of the network. The main contribution of this work is the use of a detector to localize the lesions, which we show to be beneficial to remove false positives triggered by the segmentation network.

Detection-aided liver lesion segmentation using deep learning from Xavier Giro-i-Nieto
}, author = {M{\'\i}riam Bellver and Kevis-Kokitsi Maninis and Jordi Pont-Tuset and Jordi Torres and Xavier Gir{\'o}-i-Nieto and Luc van Gool} } @mastersthesis {xBellvera, title = {Detection-aided medical image segmentation using deep learning}, year = {2017}, abstract = {

Program:\ Master{\textquoteright}s Degree in Telecommunications Engineering

Grade: A with honours (10.0/10.0)

A fully automatic technique for segmenting the liver and localizing its unhealthy tissues is a convenient tool in order to diagnose hepatic diseases and also to assess the response to the according treatments. In this thesis we propose a method to segment the liver and its lesions from Computed Tomography (CT) scans, as well as other anatomical structures and organs of the human body. We have used Convolutional Neural Networks (CNNs), that have proven good results in a variety of tasks, including medical imaging. The network to segment the lesions consists of a cascaded architecture, which first focuses on the liver region in order to segment the lesion. Moreover, we train a detector to localize the lesions and just keep those pixels from the output of the segmentation network where a lesion is detected. The segmentation architecture is based on DRIU [24], a Fully Convolutional Network (FCN) with side outputs that work at feature maps of different resolutions, to finally benefit from the multi-scale information learned by different stages of the network. Our pipeline is 2.5D, as the input of the network is a stack of consecutive slices of the CT scans. We also study different methods to benefit from the liver segmentation in order to delineate the lesion. The main focus of this work is to use the detector to localize the lesions, as we demonstrate that it helps to remove false positives triggered by the segmentation network. The benefits of using a detector on top of the segmentation is that the detector acquires a more global insight of the healthiness of a liver tissue compared to the segmentation network, whose final output is pixel-wise and is not forced to take a global decision over a whole liver patch. We show experiments with the LiTS dataset for the lesion and liver segmentation. In order to prove the generality of the segmentation network, we also segment several anatomical structures from the Visceral dataset.

Detection-aided liver lesion segmentation using deep learning from Xavier Giro-i-Nieto
}, author = {M{\'\i}riam Bellver}, editor = {Kevis-Kokitsi Maninis and Jordi Pont-Tuset and Luc van Gool and Xavier Gir{\'o}-i-Nieto and Jordi Torres} } @conference {c, title = {Distributed training strategies for a computer vision deep learning algorithm on a distributed GPU cluster}, booktitle = {International Conference on Computational Science (ICCS)}, year = {2017}, month = {06/2017}, publisher = {Elsevier}, organization = {Elsevier}, address = {Zurich, Switzerland}, abstract = {

Deep learning algorithms base their success on building high learning capacity models with millions of parameters that are tuned in a data-driven fashion. These models are trained by processing millions of examples, so that the development of more accurate algorithms is usually limited by the throughput of the computing devices on which they are trained. In this work, we explore how the training of a state-of-the-art neural network for computer vision can be parallelized on a distributed GPU cluster. The effect of distributing the training process is addressed from two different points of view. First, the scalability of the task and its performance in the distributed setting are analyzed. Second, the impact of distributed training methods on the final accuracy of the models is studied.

[ICCS 2017 website][Related session in ICCS 2017][Paper in UPCommons]

}, keywords = {distributed computing; parallel systems; deep learning; Convolutional Neural Networks}, doi = {https://doi.org/10.1016/j.procs.2017.05.074}, url = {http://www.sciencedirect.com/science/article/pii/S1877050917306129}, author = {V{\'\i}ctor Campos and Sastre, Francesc and Yag{\"u}es, Maurici and M{\'\i}riam Bellver and Xavier Gir{\'o}-i-Nieto and Jordi Torres} }