367 research outputs found
Fully Automatic Segmentation of Lumbar Vertebrae from CT Images using Cascaded 3D Fully Convolutional Networks
We present a method to address the challenging problem of segmentation of
lumbar vertebrae from CT images acquired with varying fields of view. Our
method is based on cascaded 3D Fully Convolutional Networks (FCNs) consisting
of a localization FCN and a segmentation FCN. More specifically, in the first
step we train a regression 3D FCN (we call it "LocalizationNet") to find the
bounding box of the lumbar region. After that, a 3D U-net like FCN (we call it
"SegmentationNet") is then developed, which after training, can perform a
pixel-wise multi-class segmentation to map a cropped lumber region volumetric
data to its volume-wise labels. Evaluated on publicly available datasets, our
method achieved an average Dice coefficient of 95.77 0.81% and an average
symmetric surface distance of 0.37 0.06 mm.Comment: 5 pages and 5 figure
A Survey on Deep Learning in Medical Image Analysis
Deep learning algorithms, in particular convolutional networks, have rapidly
become a methodology of choice for analyzing medical images. This paper reviews
the major deep learning concepts pertinent to medical image analysis and
summarizes over 300 contributions to the field, most of which appeared in the
last year. We survey the use of deep learning for image classification, object
detection, segmentation, registration, and other tasks and provide concise
overviews of studies per application area. Open challenges and directions for
future research are discussed.Comment: Revised survey includes expanded discussion section and reworked
introductory section on common deep architectures. Added missed papers from
before Feb 1st 201
Automatic Segmentation, Localization, and Identification of Vertebrae in 3D CT Images Using Cascaded Convolutional Neural Networks
This paper presents a method for automatic segmentation, localization, and
identification of vertebrae in arbitrary 3D CT images. Many previous works do
not perform the three tasks simultaneously even though requiring a priori
knowledge of which part of the anatomy is visible in the 3D CT images. Our
method tackles all these tasks in a single multi-stage framework without any
assumptions. In the first stage, we train a 3D Fully Convolutional Networks to
find the bounding boxes of the cervical, thoracic, and lumbar vertebrae. In the
second stage, we train an iterative 3D Fully Convolutional Networks to segment
individual vertebrae in the bounding box. The input to the second networks have
an auxiliary channel in addition to the 3D CT images. Given the segmented
vertebra regions in the auxiliary channel, the networks output the next
vertebra. The proposed method is evaluated in terms of segmentation,
localization, and identification accuracy with two public datasets of 15 3D CT
images from the MICCAI CSI 2014 workshop challenge and 302 3D CT images with
various pathologies introduced in [1]. Our method achieved a mean Dice score of
96%, a mean localization error of 8.3 mm, and a mean identification rate of
84%. In summary, our method achieved better performance than all existing works
in all the three metrics
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Probabilistic Spatial Regression using a Deep Fully Convolutional Neural Network
Probabilistic predictions are often preferred in computer vision problems because they can provide a confidence of the predicted value. The recent dominant model for computer vision problems, the convolutional neural network, produces probabilistic output for classification and segmentation problems. But probabilistic regression using neural networks is not well defined. In this work, we present a novel fully convolutional neural network capable of producing a spatial probabilistic distribution for localizing image landmarks. We have introduced a new network layer and a novel loss function for the network to produce a two-dimensional probability map. The proposed network has been used in a novel framework to localize vertebral corners for lateral cervical Xray images. The framework has been evaluated on a dataset of 172 images consisting 797 vertebrae and 3,188 vertebral corners. The proposed framework has demonstrated promising performance in localizing vertebral corners, with a relative improvement of 38% over the previous state-of-the-art
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