Evaluation of an automatic brain segmentation method developed for neonates on adult MR brain images

Automatic brain tissue segmentation is of clinical relevance in images acquired at all ages. The literature presents a clear distinction between methods developed for MR images of infants, and methods developed for images of adults. The aim of this work is to evaluate a method developed for neonatal images in the segmentation of adult images. The evaluated method employs supervised voxel classification in subsequent stages, exploiting spatial and intensity information. Evaluation was performed using images available within the MRBrainS13 challenge. The obtained average Dice coefficients were 85.77% for grey matter, 88.66% for white matter, 81.08% for cerebrospinal fluid, 95.65% for cerebrum, and 96.92% for intracranial cavity, currently resulting in the best overall ranking. The possibility of applying the same method to neonatal as well as adult images can be of great value in cross-sectional studies that include a wide age range. © (2015) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only

Interpolation artefacts in mutual information-based image registration

Image registration requires the transformation of one image to another so as to spatially align the two images. This involves interpolation to estimate gray values of one of the images at positions other than the grid points. When registering two images that have equal grid distances in one or more dimensions, the grid points can be aligned in those dimensions for certain geometric transformations. Consequently, the number of times interpolation is required to compute the registration measure of two images is dependent on the image transformation. When an entropy-based registration measure, such as mutual information, is plotted as a function of the transformation, it will show sudden changes in value for grid-aligning transformations. Such patterns of local extrema impede the registration optimization process. More importantly, they rule out subvoxel accuracy. In this paper, two frequently applied interpolation methods in mutual information-based image registration are analyzed, viz. linear interpolation and partial volume interpolation. It is shown how the registration function depends on the interpolation method and how a slight resampling of one of the images may drastically improve the smoothness of this function

Image registration by maximization of combined mutual information and gradient information

Mutual information has developed into an accurate measure for rigid and affine monomodality and multimodality image registration. The robustness of the measure is questionable, however. A possible reason for this is the absence of spatial information in the measure. The present paper proposes to include spatial information by combining mutual information with a term based on the image gradient of the images to be registered. The gradient term not only seeks to align locations of high gradient magnitude, but also aims for a similar orientation of the gradients at these locations. Results of combining both standard mutual information as well as a normalized measure are presented for rigid registration of three-dimensional clinical images [magnetic resonance (MR), computed tomography (CT), and positron emission tomography (PET)]. The results indicate that the combined measures yield a better registration function does mutual information or normalized mutual information per se. The registration functions are less sensitive to low sampling resolution, do not contain incorrect global maxima that are sometimes found in the mutual information function, and interpolation-induced local minima can be reduced. These characteristics yield the promise of more robust registration measures. The accuracy of the combined measures is similar to that of mutual information-based methods

Navigation of a telepresence robot via Covert Visuospatial Attention and real-time fMRI

Brain-computer interfaces (BCIs) allow people with severe neurological impairment and without ability to control their muscles to regain some control over their environment. The BCI user performs a mental task to regulate brain activity, which is measured and translated into commands controlling some external device. We here show that healthy participants are capable of navigating a robot by covertly shifting their visuospatial attention. Covert Visuospatial Attention (COVISA) constitutes a very intuitive brain function for spatial navigation and does not depend on presented stimuli or on eye movements. Our robot is equipped with motors and a camera that sends visual feedback to the user who can navigate it from a remote location. We used an ultrahigh field MRI scanner (7 Tesla) to obtain fMRI signals that were decoded in real time using a support vector machine. Four healthy subjects with virtually no training succeeded in navigating the robot to at least three of four target locations. Our results thus show that with COVISA BCI, realtime robot navigation can be achieved. Since the magnitude of the fMRI signal has been shown to correlate well with the magnitude of spectral power changes in the gamma frequency band in signals measured by intracranial electrodes, the COVISA concept may in future translate to intracranial application in severely paralyzed people. © 2012 The Author(s)

Adaptive stochastic gradient descent optimisation for image registration

We present a stochastic gradient descent optimisation method for image registration with adaptive step size prediction. The method is based on the theoretical work by Plakhov and Cruz (J. Math. Sci. 120(1):964-973, 2004). Our main methodological contribution is the derivation of an image-driven mechanism to select proper values for the most important free parameters of the method. The selection mechanism employs general characteristics of the cost functions that commonly occur in intensity-based image registration. Also, the theoretical convergence conditions of the optimisation method are taken into account. The proposed adaptive stochastic gradient descent (ASGD) method is compared to a standard, non-adaptive Robbins-Monro (RM) algorithm. Both ASGD and RM employ a stochastic subsampling technique to accelerate the optimisation process. Registration experiments were performed on 3D CT and MR data of the head, lungs, and prostate, using various similarity measures and transformation models. The results indicate that ASGD is robust to these variations in the registration framework and is less sensitive to the settings of the user-defined parameters than RM. The main disadvantage of RM is the need for a predetermined step size function. The ASGD method provides a solution for that issue

Mutual-information-based registration of medical images : a survey

An overview is presented of the medical image processing literature on mutual-information-based registration. The aim of the survey is threefold: an introduction for those new to the field, an overview for those working in the field, and a reference for those searching for literature on a specific application. Methods are classified according to the different aspects of mutual-information-based registration. The main division is in aspects of the methodology and of the application. The part on methodology describes choices made on facets such as preprocessing of images, gray value interpolation, optimization, adaptations to the mutual information measure, and different types of geometrical transformations. The part on applications is a reference of the literature available on different modalities, on interpatient registration and on different anatomical objects. Comparison studies including mutual information are also considered. The paper starts with a description of entropy and mutual information and it closes with a discussion on past achievements and some future challenges

Subject-specific four-dimensional liver motion modeling based on registration of dynamic MRI

Magnetic resonance-guided high intensity focused ultrasound treatment of the liver is a promising noninvasive technique for ablation of liver lesions. For the technique to be used in clinical practice, however, the issue of liver motion needs to be addressed. A subject-specific four-dimensional liver motion model is presented that is created based on registration of dynamically acquired magnetic resonance data. This model can be used for predicting the tumor motion trajectory for treatment planning and to indicate the tumor position for treatment guidance. The performance of the model was evaluated on a dynamic scan series that was not used to build the model. The method achieved an average Dice coefficient of 0.93 between the predicted and actual liver profiles and an average vessel misalignment of 3.0 mm. The model performed robustly, with a small variation in the results per subject. The results demonstrate the potential of the model to be used for MRI-guided treatment of liver lesions. Furthermore, the model can possibly be applied in other image-guided therapies, for instance radiotherapy of the liver

Geodesic deformable models for medical image analysis

In this paper implicit representations of deformable models for medical image enhancement and segmentation are considered. The advantage of implicit models over classical explicit models is that their topology can be naturally adapted to objects in the scene. A geodesic formulation of implicit deformable models is especially attractive since it has the energy minimizing properties of classical models. The aim of this paper is twofold. First, a modification to the customary geodesic deformable model approach is introduced by considering all the level sets in the image as energy minimizing contours. This approach is used to segment multiple objects simultaneously and for enhancing and segmenting cardiac computed tomography (CT) and magnetic resonance images. Second, the approach is used to effectively compare implicit and explicit models for specific tasks. This shows the complementary character of implicit models since in case of poor contrast boundaries or gaps in boundaries, e.g. due to partial volume effects, noise, or motion artifacts, they do not perform well, since the approach is completely data-driven

Subject-specific liver motion modeling in MRI:a feasibility study on spatiotemporal prediction

\u3cp\u3eA liver motion model based on registration of dynamic MRI data, as previously proposed by the authors, was extended with temporal prediction and respiratory signal data. The potential improvements of these extensions with respect to the original model were investigated. Additional evaluations were performed to investigate the limitations of the model regarding temporal prediction and extreme breathing motion. Data were acquired of four volunteers, with breathing instructions and a respiratory belt. The model was built from these data using spatial prediction only and using temporal forward prediction of 300 ms to 1200 ms, using the extended Kalman filter. From temporal prediction of 0 ms to 1200 ms ahead, the Dice coefficient of liver overlap decreased with 0.85%, the median liver surface distance increased with 20.6% and the vessel misalignment increased with 20%. The mean vessel misalignment was 2.9 mm for the original method, 3.42 mm for spatial prediction with a respiratory signal and 4.01 mm for prediction of 1200 ms ahead with a respiratory signal. Although the extension of the model to temporal prediction yields a decreased prediction accuracy, the results are still acceptable. The use of the breathing signal as input to the model is feasible. Sudden changes in the breathing pattern can yield large errors. However, these errors only persist during a short time interval, after which they can be corrected automatically. Therefore, this model could be useful in a clinical setting.\u3c/p\u3

Mono- and multimodal registration of optical breast images

Optical breast imaging offers the possibility of noninvasive, low cost, and high sensitivity imaging of breast cancers. Poor spatial resolution and a lack of anatomical landmarks in optical images of the breast make interpretation difficult and motivate registration and fusion of these data with subsequent optical images and other breast imaging modalities. Methods used for registration and fusion of optical breast images are reviewed. Imaging concerns relevant to the registration problem are first highlighted, followed by a focus on both monomodal and multimodal registration of optical breast imaging. Where relevant, methods pertaining to other imaging modalities or imaged anatomies are presented. The multimodal registration discussion concerns digital x-ray mammography, ultrasound, magnetic resonance imaging, and positron emission tomography. © 2012 Society of Photo-Optical Instrumentation Engineers (SPIE)