Virtual labyrinthoscopy: visualization of the inner ear with interactive direct volume rendering.

Computed tomography (CT) is the modality of choice for detailed imaging of the bony labyrinth. Usually, information about the complex three-dimensional anatomic structures of the inner ear is presented as two-dimensional section images. Interactive direct volume rendering is a powerful method for visualization of the labyrinth. Unlike other visualization methods, direct volume rendering enables direct visualization of the bony labyrinth without explicit segmentation prior to the visualization process. Direct volume rendering was applied to visualization of the structures of the temporal bone in five patients without pathologic conditions and four patients with pathologic conditions. In all cases, clear representations of the bony labyrinth and the facial canal were provided. Because standard CT examinations combined with interactive visualization based on direct volume rendering are used, the method is fast and flexible. Therefore, this approach is applicable in routine clinical work. Problems occur in patients with effusion in the temporal bone because adjustment of imaging parameters for proper delineation of the target structures is difficult in this situation. However, direct volume rendering can produce meaningful images of high quality even in these problematic cases. The term virtual labyrinthoscopy is suggested for visualization of the labyrinth by using direct volume rendering.     

Region-growing segmentation of brain vessels: an atlas-based automatic approach

PURPOSE: To propose an atlas-based method that uses both phase and magnitude images to integrate anatomical information in order to improve the segmentation of blood vessels in cerebral phase-contrast magnetic resonance angiography (PC-MRA). MATERIAL AND METHODS: An atlas of the whole head was developed to store the anatomical information. The atlas divides a magnitude image into several vascular areas, each of which has specific vessel properties. It can be applied to any magnitude image of an entire or nearly entire head by deformable matching, which helps to segment blood vessels from the associated phase image. The segmentation method used afterwards consists of a topology-preserving, region-growing algorithm that uses adaptive threshold values depending on the current region of the atlas. This algorithm builds the arterial and venous trees by iteratively adding voxels that are selected according to their grayscale value and the variation of values in their neighborhood. The topology preservation is guaranteed because only simple points are selected during the growing process. RESULTS: The method was performed on 40 PC-MRA images of the brain. The results were validated using maximum-intensity projection (MIP) and three-dimensional surface rendering visualization, and compared with results obtained with two non-atlas-based methods. CONCLUSION: The results show that the proposed method significantly improves the segmentation of cerebral vascular structures from PC-MRA. These experiments tend to prove that the use of vascular atlases is an effective way to optimize vessel segmentation of cerebral images.     

Multi-region labeling and segmentation using a graph topology prior and atlas information in brain images

Medical image segmentation and anatomical structure labeling according to the types of the tissues are important for accurate diagnosis and therapy. In this paper, we propose a novel approach for multi-region labeling and segmentation, which is based on a topological graph prior and the topological information of an atlas, using a modified multi-level set energy minimization method in brain images. We consider a topological graph prior and atlas information to evolve the contour based on a topological relationship presented via a graph relation. This novel method is capable of segmenting adjacent objects with very close gray level in low resolution brain image that would be difficult to segment correctly using standard methods. The topological information of an atlas are transformed to the topological graph of a low resolution (noisy) brain image to obtain region labeling. We explain our algorithm and show the topological graph prior and label transformation techniques to explain how it gives precise multi-region segmentation and labeling. The proposed algorithm is capable of segmenting and labeling different regions in noisy or low resolution MRI brain images of different modalities. We compare our approaches with other state-of-the-art approaches for multi-region labeling and segmentation.     

An internet atlas of mouse development

A prototype two- and three-dimensional color atlas of mouse development is described. The prototype has been developed using two embryos, a 13.5 d normal mouse embryo and a PATCH mutant embryo of the same age. Serial sections of the embryos, with an external registration marker system, introduced into the paraffin embedding process, were prepared by standard histological methods. For the 2D atlas, color images were digitized from 100 consecutive sections of the normal embryo. For the 3D atlas, 300 gray scale images digitized from the mutant embryo were conformally warped and reconstructed into a 3D volume dataset. The external fiducial system facilitated the three-dimensional reconstruction by providing accurate registration of consecutive images and also allowed for precise spatial calibration and the correction for warping artifacts. The atlases, with their associated anatomical knowledge base, will be integrated into a multimedia on-line information resource via the Internet's World Wide Web (WWW) using an enhanced (patent pending, Eòlas Technologies) version of the Mosaic WWW browser program from the National Center for Supercomputer Applications. These programs will provide research biologists with a set of advanced tools to analyze normal and abnormal development.     

Informatics in radiology: Hesse rendering for computer-aided visualization and analysis of anomalies at chest CT and breast MR imaging

A volume-rendering (VR) technique known as Hesse rendering applies image-enhancement filters to three-dimensional imaging volumes and depicts the filter responses in a color-coded fashion. Unlike direct VR, which makes use of intensities, Hesse rendering operates on the basis of shape properties, such that nodular structures in the resulting renderings have different colors than do tubular structures and thus are easily visualized. The renderings are mouse-click sensitive and can be used to navigate to locations of possible anomalies in the original images. Hesse rendering is meant to complement rather than replace conventional section-by-section viewing or VR. Although it is a pure visualization technique that involves no internal segmentation or explicit object detection, Hesse rendering, like computer-aided detection, may be effective for quickly calling attention to points of interest in large stacks of images and for helping radiologists to avoid oversights.     

A computerized brain atlas: construction, anatomical content, and some applications

An adjustable computerized atlas of the human brain has been developed, which can be adapted to fit individual anatomy. It is primarily intended for positron emission tomography (PET) but may also be used for single photon emission CT, transmission CT, magnetic resonance imaging, and neuroimaging-based procedures, such as stereotactic surgery and radiotherapy. The atlas is based on anatomical information obtained from brains fixed in situ soon after death. All structures have been drawn in on digitized photos of slices from one cryosectioned brain. The definition and classification of the anatomical structures and divisions are in agreement with the standard textbooks of anatomy, and the nomenclature is that of the Nomina Anatomica of 1965. The boundaries of the cortical cytoarchitectonic areas (Brodmann areas) have been determined using information from several sources, since three-dimensional literature data on their distribution are incomplete, scarce, and partly contradictory. However, no analysis of the cytoarchitectonics of the atlas brain itself has been undertaken. At present the data base contains three-dimensional representations of the brain surface, the ventricular system, the cortical gyri and sulci, as well as the Brodmann cytoarchitectonic areas. The major basal ganglia, the brain stem nuclei, the lobuli of the vermis, and the cerebellar hemispheres are also included. The computerized atlas can be used to improve the quantification and evaluation of PET data in several ways. For instance, it can serve as a guide in selecting regions of interest. It may also facilitate comparisons of data from different individuals or groups of individuals, by applying the inverse atlas transformation to PET data volume, thus relating the PET information to the anatomy of the reference atlas rather than to the patient's anatomy. Reformatted PET data from individuals can thus be averaged, and averages from different categories or different functional states of patients can be compared.     

Automated segmentation and visualization of the pulmonary vascular tree in spiral CT angiography: an anatomy-oriented approach based on three-dimensional image analysis

A new method for automated segmentation of the pulmonary vascular tree in spiral CT angiography was developed based on 3D image analysis techniques and anatomic knowledge. For efficient and effective segmentation, an anatomy-oriented approach was introduced, in which several anatomic structures are segmented sequentially and the properties of each segmented structure are used for the next step of segmentation and for validation of intermediate results. By use of clinical data of 12 patients, parameters for segmentation were analyzed and optimized. The effectiveness of the segmentation method was evaluated through the visual assessment by comparison between images of the segmentation results by volume rendering and images of maximum intensity projection of the original volume data.     

Reliability and exactness of MRI-based volumetry: A phantom study

This study investigated the influence of slice thickness. section orientation, contrast, shape, and sequence type on the exactness of MRI-based volumetry. Ni-doped agarose gel phantoms (4 to 46 ml) were scanned with a T1-weighted three-dimensional Fourier transform (FT) fast low-angle shot (FLASH) and a multiecho two-dimensional FT-Turbo spin-echo (SE) sequence. After segmentation with a three-dimensional region-growing algorithm, the geometric volume was measured considering the partial volume effect. The variability coefficient (Pearson) was .7%. The volumetric error increased with slice thickness, depending on the size and form of the object. Cross sections resulted in smaller error than longitudinal sections (finger-shaped phantoms, nonisotropic image data). Three-dimensional FT was superior to two-dimensional FT imaging. Results of slice thickness and section orientation experiments can be explained by the partial volume effect. Higher errors in two-dimensional FT imaging were caused by object movements between two interleaved acquisitions. The study shows a considerable influence of the imaging parameters on the exactness, which depends on size and form of the structure of interest.     

Analysis and 3-dimensional visualization of neurovascular compression syndromes

Rationale and Objectives. Neurovascular compression syndromes are currently examined with 2-dimensional representations of tomographic volumes. To overcome this drawback, coarse segmentation followed by direct volume rendering of magnetic resonance (MR) data is introduced supporting a detailed 3-dimensional analysis of the related structures.

Materials and Methods. This approach is based on MR-CISS (constructive interference in steady state) volumes providing the required high resolution to achieve an improved spatial understanding. In relation to the size of the involved nerves and vessels, an explicit segmentation is extremely difficult. Therefore, a semi-automatic preprocessing sequence was developed consisting of noise reduction, morphologic filtering, and volume growing. To delineate the target structures within the segmented and labeled subvolumes, interactive direct volume rendering was applied that allows delineating the target structures in the area of the cerebrospinal fluid with implicit segmentation based on predefined transfer functions assigning opacity and color values to the intensity values of the image data. For a further improved analysis, registration of the MR-CISS volumes with MR angiography is recommended to support differentiating vessels and nerves on the one side and arteries and veins on the other.

Results. The presented method was applied in a consecutive series of 47 cases of different neurovascular compression syndromes, supporting the presurgical analysis of the image data. Additionally, the results were compared with the operative findings.

Conclusion. Overall, this approach contributes significantly to an optimized 3-dimensional analysis and understanding of neurovascular compression syndromes. Based on the obtained results, it is of high value for the planning of surgery.     

Multi-detector row CT of thoracic disease with emphasis on 3D volume rendering and CT angiography.

Multi-detector row computed tomography (CT) with three-dimensional (3D) volume rendering provides a unique perspective on thoracic anatomy and disease. Multi-detector row CT allows shorter acquisition times, greater coverage, and superior image resolution. Three-dimensional volume rendering now permits real-time, interactive modification of relative pixel attenuation in an infinite number of planes and projections. In vascular imaging, this technique provides image quality that equals or surpasses that of conventional angiography. Its use has expanded to aid in diagnosis and surgical planning, often obviating conventional or digital angiography and reducing costs. It is reliable in depicting clot and the pulmonary vasculature and may also be used to evaluate thoracic venous anomalies (eg, pulmonary arteriovenous malformations) and to plan therapy. Airway imaging with multi-detector row CT with 3D volume rendering is particularly useful in the planning and follow-up of stent placement. In diffuse lung disease, this technique can increase nodule detection and help differentiate between small nodules and vessels. It is also helpful in imaging the musculoskeletal system and the thoracic cage. Multi-detector row CT with 3D volume rendering has enhanced the conventional roles of thoracic CT and challenged the supremacy of other imaging modalities. It will likely play a leading role in future radiologic research and practice.     

Computer-assisted identification and quantification of multiple sclerosis lesions in MR imaging volumes in the brain

Magnetic resonance (MR) imaging is the principal imaging technique for the diagnosis of multiple sclerosis (MS). However, quantifying the number and extent of lesions on MR images manually is arduous. The authors have developed a computerized three-dimensional (3D) quantitative system to assist in the identification and analysis of MS lesions in proton-density (PD)- and T2-weighted volumes of the head. The system provides intuitive, interactive operations that allow flexible extraction of information from the data. Use of the system to analyze MR examinations of a phantom containing regular “lesions” showed that accurate (average error, <0.21 cm³) and precise (10% or better for lesions > 1 cm³) measurements of objects less than 7 cm³ is possible, and that an estimate of the quantization error predicted the uncertainty in the volume. Analysis of four MR examinations of a chronic-progressive MS patient conducted over an 18-month period was performed. A two-dimensional histogram showing the frequency of voxels with particular PD- and T2-weighted intensities revealed a distinct cluster only in histograms of sections that contained lesions. Measurements and 3D volume rendering of lesions clearly showed changes in lesion shape, position, and size.     

3D long bone reconstruction based on level sets.

In medical imaging a three-dimensional (3D) object must often be reconstructed from serial cross-sections to aid in the comprehension of the object's structure as well as to facilitate its automatic manipulation and analysis. The most popular interpolation scheme for a sequence of image slices is the shape-based method, where object information extracted from a given 3D volume image is used in guiding the interpolation process. The paper presents a level set reformulation of the well-known shape-based method as well as a new automatic level set method, which offers better performance. In particular, we focus on X-ray examinations of long bones, which also requires us to deal with the problem of an optimal slice positioning. To this aim, a 2D version of the proposed algorithm will be used to localize a subset of slices from the entire volume image. A number of experiments were performed on computed tomographic real images to evaluate the proposed approach. The experimental results show a substantial improvement of visual effects (qualitative evaluation) using the proposed method in comparison to both the conventional gray-level interpolation scheme and the shape-based method. Compared with the shape-based interpolation scheme the proposed method has much lower computational cost.     

Segmentation of brain MRI in young children

RATIONALE AND OBJECTIVES: This article deals with an automatic tissue segmentation of brain magnetic resonance imaging (MRI) in young children. MATERIALS AND METHODS: We examine the suitability of state-of-the-art methods developed for the adult brain when applied to the segmentation of the brain MRI in young children. We develop a method of creation of a population-specific atlas in young children using a single manual segmentation. The method is based on nonlinear propagation of the segmentation into population and subsequent affine alignment into a reference space and averaging. RESULTS: Using this approach, we significantly improve the performance of the popular expectation-maximization algorithm on brain MRI in young children. The method can be used for building probabilistic atlases with any number of structures. We compare resulting algorithm with nonrigid registration-based label propagation. CONCLUSIONS: Finally, both methods are used to measure the volume of seven brain structures and measure the growth between 1 and 2 years of age.     

Three-dimensionla images of the brain surface from standard CT examination

Three-dimensional (3D) image rendering was performed using data from standard CT examinations of the head. In this new method for 3D imaging of the brain surface interactive image segmentation and integral rendering were combined. Interactive segmentation operations meant that 3D images could be obtained within a short period of time. When combined with integral rendering this permits good-quality 3D views, even when generated from standard thick slices, together with visualisation of both the shape and densities of the brain surface. Surface infarctions can be evaluated in terms of their anatomical localisation to gyri and sulci, thus allowing their relationship to functional areas to be better defined. The technique can be an additional, easily obtainable tool, even in routine practice, for a better understanding of neurological signs. Correspondence to: R. Pozzi Mucelli     

16排螺旋CT三维重建在寰枢椎损伤中的应用

目的:回顾性分析16排螺旋CT扫描及三维重建技术在寰枢椎损伤中的诊断价值。方法:33例寰枢椎损伤患者,均行16排螺旋CT扫描及后处理重建(包括SSD,MPR,VR),平扫层厚2.5mm或5.0mm,重建层厚0.625mm或1.25mm,其中22例患者行普通X线检查,10例行MR检查。结果:33例患者中,单纯横韧带损伤1例,寰椎骨折5例,寰枢关节脱位8例,枢椎骨折19例,多排螺旋CT及后处理技术可以清晰显示骨折的部位及分型,寰齿间隙的改变。平片漏诊率为22.7%(5/22),轴位图像漏诊率为6.1%(2/33),结合三维后处理漏诊率为0%,MR能清晰显示脊髓损伤情况。结论:多排螺旋CT三维重建技术是诊断寰枢椎损伤的首选方法,结合MR可以进一步了解脊髓损伤情况。     

Techniques for efficient, real-time, 3D visualization of multi-modality cardiac data using consumer graphics hardware.

We exploit consumer graphics hardware to perform real-time processing and visualization of high-resolution, 4D cardiac data. We have implemented real-time, realistic volume rendering, interactive 4D motion segmentation of cardiac data, visualization of multi-modality cardiac data and 3D display of multiple series cardiac MRI. We show that an ATI Radeon 9700 Pro can render a 512x512x128 cardiac Computed Tomography (CT) study at 0.9 to 60 frames per second (fps) depending on rendering parameters and that 4D motion based segmentation can be performed in real-time. We conclude that real-time rendering and processing of cardiac data can be implemented on consumer graphics cards.     

Volume (three-dimensional) fast spin-echo imaging of the lumbar spine

RATIONALE AND OBJECTIVES: The purpose of this study was to prospectively evaluate a proton-density-weighted, three-dimensional (3D) volume fast spin-echo (SE) pulse sequence in the assessment of the lumbar spine for suspected spondylosis. MATERIALS AND METHODS: Twenty-eight patients referred for low back or lower extremity pain were imaged with both a two-dimensional (2D) protocol and a proton-density-weighted 3D volume fast SE imaging. The spinal canal, conus medullaris, intervertebral disks, neural foramina, bone marrow, and spinal alignment shown with the 3D volume fast SE pulse sequence were independently assessed by two neuroradiologists. These findings were compared with those of the routine 2D studies. RESULTS: Interpretation of disk protrusions and stenoses of the neural foramina were concordant between both protocols. No instance of cord abnormality was detected with either protocol. CONCLUSION: A 3D volume fast SE proton-density-weighted pulse sequence may provide information comparable to that of routine 2D imaging. Advantages of volume imaging include thinner sections, the capability of reconstruction into any plane, and the potential to decrease imaging time.     

Lower extremity compartmental anatomy: clinical relevance to radiologists

A thorough understanding of compartmental anatomy is necessary for the radiologist participating in the care of a patient with a lower extremity musculoskeletal malignancy. Localization of tumor to compartment of origin and identification of extracompartmental spread preoperatively are needed to correctly stage a tumor and determine the appropriate surgical management. An understanding of the locations of fascial boundaries, extracompartmental tissues, and neurovascular structures of the thigh and lower leg facilitates this diagnostic process. For the radiologist planning to biopsy a suspicious musculoskeletal lesion, consultation with the referring orthopaedic surgeon is recommended in order to jointly select an appropriate percutaneous biopsy approach. Adequate preprocedural planning ensures selection of an approach which prevents iatrogenic tumor spread beyond the compartment of origin, protects neurovascular structures, and allows complete resection of the biopsy tract and scar at the time of surgical resection without jeopardizing a potential limb-sparing procedure. Cross-sectional anatomic review and case examples demonstrate the importance of a detailed understanding of compartmental anatomy when approaching the patient with a lower extremity musculoskeletal tumor.     

Evaluation of elastic matching system for anatomic (CT, MR) and functional (PET) cerebral images

To evaluate the performance of our elastic matching system, we have created a digitized atlas from the brain of a normal young man, using 135 myelin-stained sections at 700 microns spacing. Software was written to enter and edit regional anatomic contours, which were stacked and aligned to create a three-dimensional atlas. We then evaluated the matching system by comparing computer generated contours with expert defined contours for several subcortical structures, based on CT scans from six neurologically normal patients. The error in positioning, as defined by the distance between the centers of gravity, averaged 4.2 mm for the computer and 1.7 mm for the worst expert's reading, with the computer drawn region frequently inscribed within that of the expert. Comparison was also made for each structure by determining the volume of overlap and the volumes not overlapping. On average, the computer's agreement with the experts was approximately 20% less than the agreement among the experts. This was a preliminary test of the system using only subcortical structures. The results are promising, and techniques are being implemented to overcome the current deficiencies.     

A 3D fiber model of the human brainstem

A new neuroanatomic approach to evaluate the fiber orientation in gross histological sections of the human brain was developed. Serial sections of a human brainstem were used to derive fiber orientation maps by analysis of polarized light sequences of these sections. Fiber inclination maps visualize angles of inclination, and fiber direction maps show angles of direction. These angles define vectors which can be visualized as RGB-colors. The serial sections were aligned to each other using the minimized Euclidian distance as fit criterion. In the 3D data set of the human brainstem the major fiber tracts were segmented, and three-dimensional models of these fiber tracts were generated. The presented results demonstrate that two kinds of fiber atlases are feasible: a fiber orientation atlas representing a vector in each voxel, which shows the nerve fiber orientation, and a volume-based atlas representing the major fiber tracts. These models can be used for the evaluation of diffusion tensor data as well as for neurosurgical planning.