252 research outputs found
Automatic Renal Segmentation in DCE-MRI using Convolutional Neural Networks
Kidney function evaluation using dynamic contrast-enhanced MRI (DCE-MRI)
images could help in diagnosis and treatment of kidney diseases of children.
Automatic segmentation of renal parenchyma is an important step in this
process. In this paper, we propose a time and memory efficient fully automated
segmentation method which achieves high segmentation accuracy with running time
in the order of seconds in both normal kidneys and kidneys with hydronephrosis.
The proposed method is based on a cascaded application of two 3D convolutional
neural networks that employs spatial and temporal information at the same time
in order to learn the tasks of localization and segmentation of kidneys,
respectively. Segmentation performance is evaluated on both normal and abnormal
kidneys with varying levels of hydronephrosis. We achieved a mean dice
coefficient of 91.4 and 83.6 for normal and abnormal kidneys of pediatric
patients, respectively
Non-central chi estimation of multi-compartment models improves model selection by reducing overfitting
International audienceDiffusion images are known to be corrupted with a non-central chi (NCC)-distributed noise [1]. There has been a number of proposed image denoising methods that account for this particular noise distribution [1,2,3]. However, to the best of our knowledge, no study was performed to assess the influence of the noise model in the context of diffusion model estimation as was suggested in [4]. In particular, multi-compartment models [5] are an appealing class of models to describe the white matter microstructure but require the optimal number of compartments to be known a priori. Its estimation is no easy task since more complex models will always better fit the data, which is known as over-fitting. However, MCM estimation in the literature is performed assuming a Gaussian-distributed noise [5,6]. In this preliminary study, we aim at showing that using the appropriate NCC distribution for modelling the noise model reduces significantly the over-fitting, which could be helpful for unravelling model selection issues and obtaining better model parameter estimates
Real-Time Automatic Fetal Brain Extraction in Fetal MRI by Deep Learning
Brain segmentation is a fundamental first step in neuroimage analysis. In the
case of fetal MRI, it is particularly challenging and important due to the
arbitrary orientation of the fetus, organs that surround the fetal head, and
intermittent fetal motion. Several promising methods have been proposed but are
limited in their performance in challenging cases and in real-time
segmentation. We aimed to develop a fully automatic segmentation method that
independently segments sections of the fetal brain in 2D fetal MRI slices in
real-time. To this end, we developed and evaluated a deep fully convolutional
neural network based on 2D U-net and autocontext, and compared it to two
alternative fast methods based on 1) a voxelwise fully convolutional network
and 2) a method based on SIFT features, random forest and conditional random
field. We trained the networks with manual brain masks on 250 stacks of
training images, and tested on 17 stacks of normal fetal brain images as well
as 18 stacks of extremely challenging cases based on extreme motion, noise, and
severely abnormal brain shape. Experimental results show that our U-net
approach outperformed the other methods and achieved average Dice metrics of
96.52% and 78.83% in the normal and challenging test sets, respectively. With
an unprecedented performance and a test run time of about 1 second, our network
can be used to segment the fetal brain in real-time while fetal MRI slices are
being acquired. This can enable real-time motion tracking, motion detection,
and 3D reconstruction of fetal brain MRI.Comment: This work has been submitted to ISBI 201
- …