Automatic extraction of mandibular nerve and bone from cone-beam CT data

Segmenting the Inferior Alveolar Canal in CBCTs Volumes: The ToothFairy Challenge

In recent years, several algorithms have been developed for the segmentation of the Inferior Alveolar Canal (IAC) in Cone-Beam Computed Tomography (CBCT) scans. However, the availability of public datasets in this domain is limited, resulting in a lack of comparative evaluation studies on a common benchmark. To address this scientific gap and encourage deep learning research in the field, the ToothFairy challenge was organized within the MICCAI 2023 conference. In this context, a public dataset was released to also serve as a benchmark for future research. The dataset comprises 443 CBCT scans, with voxel-level annotations of the IAC available for 153 of them, making it the largest publicly available dataset of its kind. The participants of the challenge were tasked with developing an algorithm to accurately identify the IAC using the 2D and 3D-annotated scans. This paper presents the details of the challenge and the contributions made by the most promising methods proposed by the participants. It represents the first comprehensive comparative evaluation of IAC segmentation methods on a common benchmark dataset, providing insights into the current state-of-the-art algorithms and outlining future research directions. Furthermore, to ensure reproducibility and promote future developments, an open-source repository that collects the implementations of the best submissions was released.

Automatic classification of 3D positional relationship between mandibular third molar and inferior alveolar canal using a distance-aware network

The purpose of this study was to automatically classify the three-dimensional (3D) positional relationship between an impacted mandibular third molar (M3) and the inferior alveolar canal (MC) using a distance-aware network in cone-beam CT (CBCT) images. We developed a network consisting of cascaded stages of segmentation and classification for the buccal-lingual relationship between the M3 and the MC. The M3 and the MC were simultaneously segmented using Dense121 U-Net in the segmentation stage, and their buccal-lingual relationship was automatically classified using a 3D distance-aware network with the multichannel inputs of the original CBCT image and the signed distance map (SDM) generated from the segmentation in the classification stage. The Dense121 U-Net achieved the highest average precision of 0.87, 0.96, and 0.94 in the segmentation of the M3, the MC, and both together, respectively. The 3D distance-aware classification network of the Dense121 U-Net with the input of both the CBCT image and the SDM showed the highest performance of accuracy, sensitivity, specificity, and area under the receiver operating characteristic curve, each of which had a value of 1.00. The SDM generated from the segmentation mask significantly contributed to increasing the accuracy of the classification network. The proposed distance-aware network demonstrated high accuracy in the automatic classification of the 3D positional relationship between the M3 and the MC by learning anatomical and geometrical information from the CBCT images.

Canal-Net for automatic and robust 3D segmentation of mandibular canals in CBCT images using a continuity-aware contextual network

The purpose of this study was to propose a continuity-aware contextual network (Canal-Net) for the automatic and robust 3D segmentation of the mandibular canal (MC) with high consistent accuracy throughout the entire MC volume in cone-beam CT (CBCT) images. The Canal-Net was designed based on a 3D U-Net with bidirectional convolutional long short-term memory (ConvLSTM) under a multi-task learning framework. Specifically, the Canal-Net learned the 3D anatomical context information of the MC by incorporating spatio-temporal features from ConvLSTM, and also the structural continuity of the overall MC volume under a multi-task learning framework using multi-planar projection losses complementally. The Canal-Net showed higher segmentation accuracies in 2D and 3D performance metrics (p < 0.05), and especially, a significant improvement in Dice similarity coefficient scores and mean curve distance (p < 0.05) throughout the entire MC volume compared to other popular deep learning networks. As a result, the Canal-Net achieved high consistent accuracy in 3D segmentations of the entire MC in spite of the areas of low visibility by the unclear and ambiguous cortical bone layer. Therefore, the Canal-Net demonstrated the automatic and robust 3D segmentation of the entire MC volume by improving structural continuity and boundary details of the MC in CBCT images.

Automatic Segmentation of Mandible from Conventional Methods to Deep Learning-A Review

Medical imaging techniques, such as (cone beam) computed tomography and magnetic resonance imaging, have proven to be a valuable component for oral and maxillofacial surgery (OMFS). Accurate segmentation of the mandible from head and neck (H&N) scans is an important step in order to build a personalized 3D digital mandible model for 3D printing and treatment planning of OMFS. Segmented mandible structures are used to effectively visualize the mandible volumes and to evaluate particular mandible properties quantitatively. However, mandible segmentation is always challenging for both clinicians and researchers, due to complex structures and higher attenuation materials, such as teeth (filling) or metal implants that easily lead to high noise and strong artifacts during scanning. Moreover, the size and shape of the mandible vary to a large extent between individuals. Therefore, mandible segmentation is a tedious and time-consuming task and requires adequate training to be performed properly. With the advancement of computer vision approaches, researchers have developed several algorithms to automatically segment the mandible during the last two decades. The objective of this review was to present the available fully (semi)automatic segmentation methods of the mandible published in different scientific articles. This review provides a vivid description of the scientific advancements to clinicians and researchers in this field to help develop novel automatic methods for clinical applications.

Assessment of Differences in the Dimensions of Mandible Condyle Models in Fan- versus Cone-Beam Computer Tomography Acquisition

Modern treatment in the field of head and neck surgery aims for the least invasive therapy and places great emphasis on restorative treatment, especially in the case of injury and deformation corrective surgery. More and more often, surgeons use CAD/CAM (Computer-Aided Design and Computer-Aided Manufacturing) tools in their daily practice in the form of models, templates, and computer simulations of planning. These tools are based on DICOM (Digital Imaging and Communications in Medicine) files derived from computed tomography. They can be obtained from both fan-beam (FBCT) and cone-beam tomography (CBCT) acquisitions, which are subsequently segmented in order to transform them into a 1-bit 3D model, which is the basis for further CAD processes.

AIM

Evaluation of differences in the dimensions of mandible condyle models in fan- versus cone-beam computer tomography for surgical treatment purposes.

METHODS

499 healthy condyles were examined in CT-based 3D models of Caucasians aged 8-88 years old. Datasets were obtained from 66 CBCT and 184 FBCT axial image series (in each case, imaging both mandible condyles resulted in the acquisition of 132 condyles from CBCT and 368 condyles from FBCT) and were transformed into three-dimensional models by digital segmentation. Eleven different measurements were performed to obtain information whether there were any differences between FBCT and CBCT models of the same anatomical region.

RESULTS

7 of 11 dimensions were significantly higher in FBCT versus lower in CBCT (p < 0.05).

Tracking-based deep learning method for temporomandibular joint segmentation

Background

The shape, size, and surface information relating to the glenoid fossae and condyles in temporomandibular joints (TMJ) are essential for diagnosing and treating. Patients with TMJ disease often have surface abrasion which may cause fuzzy edges in computed tomography (CT) imaging, especially for low-dose CT, making TMJ segmentation more difficult.

Methods

In this paper, an automatic segmentation algorithm based on deep learning and post-processing was introduced. First, U-Net was used to divide images into 3 categories: glenoid fossae, condyles, and background. For structural fractures in these divided images, the internal force constraint of a snake model was used to replenish the integrity of the fracture boundary in a post-processing operation, and the initial boundary of the snake was obtained based on the basis of the tracking concept. A total of 206 cases of low-dose CT were used to verify the effectiveness of the algorithm, and such indicators as the Dice coefficient (DC) and mean surface distance (MSD) were used to evaluate the agreement between experimental results and the gold standard.

Results

The proposed method is tested on a self-collected dataset. The results demonstrate that proposed method achieves state-of-the-art performance in terms of DCs = 0.92±0.03 (condyles) and 0.90±0.04 (glenoid fossae), and MSDs =0.20±0.19 mm (condyles) and 0.19±0.08 mm (glenoid fossae).

Conclusions

This study is the first to focus on the simultaneous segmentation of TMJ glenoid fossae and condyles. The proposed U-Net + tracking-based algorithm showed a relatively high segmentation efficiency, enabling it to achieve sought-after segmentation accuracy.

LRVRG: a local region-based variational region growing algorithm for fast mandible segmentation from CBCT images

OBJECTIVES

To segment the mandible from cone-beam computed tomography (CBCT) images efficiently and accurately for the 3D mandible model is essential for subsequent research and diagnosis.

METHODS

This paper proposes a local region-based variational region growing algorithm, which integrates local region and shape prior to segment the mandible accurately. Firstly, we select initial seeds in the CBCT image and then calculate candidate point sets and the local region energy function of each point. If a point reduces the energy, it is selected to be a pixel of the foreground region. By multiple iterations, the mandible segmentation of the slice can be obtained. Secondly, the segmented result of the previous slice is adopted as the shape prior to the next slice until all of the slices in CBCT are segmented. At last, the final mandible model is reconstructed by the Marching Cubes algorithm.

RESULTS

The experimental results on CBCT datasets illustrate the LRVRG algorithm can obtain satisfied 3D mandible models from CBCT images and it can solve the fuzzy problem effectively. Furthermore, quantitative comparisons with other methods demonstrate the proposed method achieves the state-of-the-art performance in mandible segmentation.

CONCLUSIONS

Experiments demonstrate that our method is efficient and accurate for the mandible model segmentation.

Deep Learning Method for Mandibular Canal Segmentation in Dental Cone Beam Computed Tomography Volumes

Accurate localisation of mandibular canals in lower jaws is important in dental implantology, in which the implant position and dimensions are currently determined manually from 3D CT images by medical experts to avoid damaging the mandibular nerve inside the canal. Here we present a deep learning system for automatic localisation of the mandibular canals by applying a fully convolutional neural network segmentation on clinically diverse dataset of 637 cone beam CT volumes, with mandibular canals being coarsely annotated by radiologists, and using a dataset of 15 volumes with accurate voxel-level mandibular canal annotations for model evaluation. We show that our deep learning model, trained on the coarsely annotated volumes, localises mandibular canals of the voxel-level annotated set, highly accurately with the mean curve distance and average symmetric surface distance being 0.56 mm and 0.45 mm, respectively. These unparalleled accurate results highlight that deep learning integrated into dental implantology workflow could significantly reduce manual labour in mandibular canal annotations.

Computed tomography data collection of the complete human mandible and valid clinical ground truth models

Image-based algorithmic software segmentation is an increasingly important topic in many medical fields. Algorithmic segmentation is used for medical three-dimensional visualization, diagnosis or treatment support, especially in complex medical cases. However, accessible medical databases are limited, and valid medical ground truth databases for the evaluation of algorithms are rare and usually comprise only a few images. Inaccuracy or invalidity of medical ground truth data and image-based artefacts also limit the creation of such databases, which is especially relevant for CT data sets of the maxillomandibular complex. This contribution provides a unique and accessible data set of the complete mandible, including 20 valid ground truth segmentation models originating from 10 CT scans from clinical practice without artefacts or faulty slices. From each CT scan, two 3D ground truth models were created by clinical experts through independent manual slice-by-slice segmentation, and the models were statistically compared to prove their validity. These data could be used to conduct serial image studies of the human mandible, evaluating segmentation algorithms and developing adequate image tools.

Marker-based watershed transform method for fully automatic mandibular segmentation from CBCT images

OBJECTIVES:

To propose a reliable and practical method for automatically segmenting the mandible from CBCT images.

METHODS:

The marker-based watershed transform is a region-growing approach that dilates or "floods" predefined markers onto a height map whose ridges denote object boundaries. We applied this method to segment the mandible from the rest of the CBCT image. The height map was generated to enhance the sharp decreases of intensity at the mandible/tissue border and suppress noise by computing the intensity gradient image of the CBCT itself. Two sets of markers, "mandible" and "background" were automatically placed inside and outside the mandible, respectively in a novel image using image registration. The watershed transform flooded the gradient image by dilating the markers simultaneously until colliding at watershed lines, estimating the mandible boundary. CBCT images of 20 adolescent subjects were chosen as test cases. Segmentation accuracy of the proposed method was evaluated by measuring overlap (Dice similarity coefficient) and boundary agreement against a well-accepted interactive segmentation method described in the literature.

RESULTS:

The Dice similarity coefficient was 0.97 ± 0.01 (mean ± SD), indicating almost complete overlap between the automatically and the interactively segmented mandibles. Boundary deviations were predominantly under 1 mm for most of the mandibular surfaces. The errors were mostly from bones around partially erupted wisdom teeth, the condyles and the dental enamels, which had minimal impact on the overall morphology of the mandible.

CONCLUSIONS:

The marker-based watershed transform method produces segmentation accuracy comparable to the well-accepted interactive segmentation approach.

Clinical evaluation of semi-automatic open-source algorithmic software segmentation of the mandibular bone: Practical feasibility and assessment of a new course of action

INTRODUCTION

Computer assisted technologies based on algorithmic software segmentation are an increasing topic of interest in complex surgical cases. However-due to functional instability, time consuming software processes, personnel resources or licensed-based financial costs many segmentation processes are often outsourced from clinical centers to third parties and the industry. Therefore, the aim of this trial was to assess the practical feasibility of an easy available, functional stable and licensed-free segmentation approach to be used in the clinical practice.

MATERIAL AND METHODS

In this retrospective, randomized, controlled trail the accuracy and accordance of the open-source based segmentation algorithm GrowCut was assessed through the comparison to the manually generated ground truth of the same anatomy using 10 CT lower jaw data-sets from the clinical routine. Assessment parameters were the segmentation time, the volume, the voxel number, the Dice Score and the Hausdorff distance.

RESULTS

Overall semi-automatic GrowCut segmentation times were about one minute. Mean Dice Score values of over 85% and Hausdorff Distances below 33.5 voxel could be achieved between the algorithmic GrowCut-based segmentations and the manual generated ground truth schemes. Statistical differences between the assessment parameters were not significant (p<0.05) and correlation coefficients were close to the value one (r > 0.94) for any of the comparison made between the two groups.

DISCUSSION

Complete functional stable and time saving segmentations with high accuracy and high positive correlation could be performed by the presented interactive open-source based approach. In the cranio-maxillofacial complex the used method could represent an algorithmic alternative for image-based segmentation in the clinical practice for e.g. surgical treatment planning or visualization of postoperative results and offers several advantages. Due to an open-source basis the used method could be further developed by other groups or specialists. Systematic comparisons to other segmentation approaches or with a greater data amount are areas of future works.

Tracking of the inferior alveolar nerve: its implication in surgical planning

OBJECTIVES

The objective of the study is to assess the correlation between the mandibular canal tracing done on cone beam CT (CBCT) data, with the size, shape, and position of the neurovascular bundle (NB) obtained by magnetic resonance imaging (MRI).

MATERIAL AND METHODS

Six human cadaver mandibles were scanned with a CBCT Promax® scanner (Planmeca, Helsinki, Finland) and with an Ingenia® 3.0 T MR system (Philips, Amsterdam, The Netherlands). The NB was segmented from the MRI dataset, while the mandibular canal (MC) tracing was done on the CBCT images. Quantitative 3D analysis was made for the full-segmented nerves and for three defined regions of specific clinical interest, namely angle, body, and mental region.

RESULTS

From the 3D MRI analysis, the nerve thickness (for the angle, body, and mental region) ranges from 0.8 to 5.2 mm, while the thickness of the mandibular canal tracing is approximately 2.00 mm on both sides as chosen in the tracing software. The mean volume of the NB on the left is 828.49 ± 215.54 mm³ and on the right 792.98 ± 264.57 mm³. For the nerve tracing, the mean value is 351.92 ± 16.42 and 339.69 ± 16.12 mm³ on the left and right sides, respectively. Wilcoxon signed-rank test showed significant differences between NB and MC volume measurements (p = 0.0005). The Bland-Altman plots show an increasing slope for thickness and volume, indicating that the absolute differences between neurovascular bundle, estimated by MRI, and the mandibular canal, drawn on the CBCT images, increase with larger mean values.

CONCLUSIONS

Surgeons should be aware of the shortcomings of nerve tracing in the different regions of the mandible.

CLINICAL RELEVANCE

Tracing of the inferior alveolar nerve (IAN) underestimates shape and volume. Whenever nerve tracing instead of well-recognizable anatomical bony landmarks is used for surgical planning that need precision, a wider safe margin is recommended.

3D exemplar-based random walks for tooth segmentation from cone-beam computed tomography images

PURPOSE

Tooth segmentation is an essential step in acquiring patient-specific dental geometries from cone-beam computed tomography (CBCT) images. Tooth segmentation from CBCT images is still a challenging task considering the comparatively low image quality caused by the limited radiation dose, as well as structural ambiguities from intercuspation and nearby alveolar bones. The goal of this paper is to present and discuss the latest accomplishments in semisupervised tooth segmentation with adaptive 3D shape constraints.

METHODS

The authors propose a 3D exemplar-based random walk method of tooth segmentation from CBCT images. The proposed method integrates semisupervised label propagation and regularization by 3D exemplar registration. To begin with, the pure random walk method is to get an initial segmentation of the teeth, which tends to be erroneous because of the structural ambiguity of CBCT images. And then, as an iterative refinement, the authors conduct a regularization by using 3D exemplar registration, as well as label propagation by random walks with soft constraints, to improve the tooth segmentation. In the first stage of the iteration, 3D exemplars with well-defined topologies are adapted to fit the tooth contours, which are obtained from the random walks based segmentation. The soft constraints on voxel labeling are defined by shape-based foreground dentine probability acquired by the exemplar registration, as well as the appearance-based probability from a support vector machine (SVM) classifier. In the second stage, the labels of the volume-of-interest (VOI) are updated by the random walks with soft constraints. The two stages are optimized iteratively. Instead of the one-shot label propagation in the VOI, an iterative refinement process can achieve a reliable tooth segmentation by virtue of exemplar-based random walks with adaptive soft constraints.

RESULTS

The proposed method was applied for tooth segmentation of twenty clinically captured CBCT images. Three metrics, including the Dice similarity coefficient (DSC), the Jaccard similarity coefficient (JSC), and the mean surface deviation (MSD), were used to quantitatively analyze the segmentation of anterior teeth including incisors and canines, premolars, and molars. The segmentation of the anterior teeth achieved a DSC up to 98%, a JSC of 97%, and an MSD of 0.11 mm compared with manual segmentation. For the premolars, the average values of DSC, JSC, and MSD were 98%, 96%, and 0.12 mm, respectively. The proposed method yielded a DSC of 95%, a JSC of 89%, and an MSD of 0.26 mm for molars. Aside from the interactive definition of label priors by the user, automatic tooth segmentation can be achieved in an average of 1.18 min.

CONCLUSIONS

The proposed technique enables an efficient and reliable tooth segmentation from CBCT images. This study makes it clinically practical to segment teeth from CBCT images, thus facilitating pre- and interoperative uses of dental morphologies in maxillofacial and orthodontic treatments.

Segmentation of facial bone surfaces by patch growing from cone beam CT volumes

OBJECTIVES

The motivation behind this work was to design an automatic algorithm capable of segmenting the exterior of the dental and facial bones including the mandible, teeth, maxilla and zygomatic bone with an open surface (a surface with a boundary) from CBCT images for the anatomy-based reconstruction of radiographs. Such an algorithm would provide speed, consistency and improved image quality for clinical workflows, for example, in planning of implants.

METHODS

We used CBCT images from two studies: first to develop (n = 19) and then to test (n = 30) a segmentation pipeline. The pipeline operates by parameterizing the topology and shape of the target, searching for potential points on the facial bone-soft tissue edge, reconstructing a triangular mesh by growing patches on from the edge points with good contrast and regularizing the result with a surface polynomial. This process is repeated for convergence.

RESULTS

The output of the algorithm was benchmarked against a hand-drawn reference and reached a 0.50 ± 1.0-mm average and 1.1-mm root mean squares error in Euclidean distance from the reference to our automatically segmented surface. These results were achieved with images affected by inhomogeneity, noise and metal artefacts that are typical for dental CBCT.

CONCLUSIONS

Previously, this level of accuracy and precision in dental CBCT has been reported in segmenting only the mandible, a much easier target. The segmentation results were consistent throughout the data set and the pipeline was found fast enough (<1-min average computation time) to be considered for clinical use.

Planning of mandibular reconstructions based on statistical shape models

PURPOSE

The reconstruction of large continuity defects of the mandible is a challenging task, especially when the shape of the missing part is not known prior to operation. Today, the surgical planning is based mainly on visual judgment and the individual skills and experience of the surgeons. The objective of the current study was to develop a computer-based method that is capable of proposing a reconstruction shape from a known residual mandible part.

METHODS

The volumetric data derived from 60 CT scans of mandibles were used as the basis for the novel numerical procedure. To find a standardized representation of the mandible shapes, a mesh was elaborated that follows the course of anatomical structures with a specially developed topology of quadrilaterals. These standard meshes were transformed with defined mesh modifications toward each individual mandible surface to allow for further statistical evaluations. The data were used to capture the inter-individual shape variations that were considered as random field variations and mathematically evaluated with principal component analysis. With this information of the mandibular shape variations, an algorithm was developed that proposes shapes for reconstruction planning based on given residual mandible geometry parts.

RESULTS

The accuracy of the novel method was evaluated on six different virtually defined continuity defects that were each created on three mandibles that were not part of the initial database. Virtual reconstructions showed sufficient accuracy of the algorithm for the planning of surgical reconstructions, with average deviations toward the actual geometry of [Formula: see text] mm for small missing parts and 5 mm for large hemi-lateral defects.

CONCLUSIONS

The presented algorithm may be a valuable tool for the planning of mandibular reconstructions. The proposed shapes can be used as templates for computer-aided manufacturing, e.g., with 3D printing devices that use biocompatible materials.

Automated segmentation of dental CBCT image with prior-guided sequential random forests

PURPOSE

Cone-beam computed tomography (CBCT) is an increasingly utilized imaging modality for the diagnosis and treatment planning of the patients with craniomaxillofacial (CMF) deformities. Accurate segmentation of CBCT image is an essential step to generate 3D models for the diagnosis and treatment planning of the patients with CMF deformities. However, due to the image artifacts caused by beam hardening, imaging noise, inhomogeneity, truncation, and maximal intercuspation, it is difficult to segment the CBCT.

METHODS

In this paper, the authors present a new automatic segmentation method to address these problems. Specifically, the authors first employ a majority voting method to estimate the initial segmentation probability maps of both mandible and maxilla based on multiple aligned expert-segmented CBCT images. These probability maps provide an important prior guidance for CBCT segmentation. The authors then extract both the appearance features from CBCTs and the context features from the initial probability maps to train the first-layer of random forest classifier that can select discriminative features for segmentation. Based on the first-layer of trained classifier, the probability maps are updated, which will be employed to further train the next layer of random forest classifier. By iteratively training the subsequent random forest classifier using both the original CBCT features and the updated segmentation probability maps, a sequence of classifiers can be derived for accurate segmentation of CBCT images.

RESULTS

Segmentation results on CBCTs of 30 subjects were both quantitatively and qualitatively validated based on manually labeled ground truth. The average Dice ratios of mandible and maxilla by the authors' method were 0.94 and 0.91, respectively, which are significantly better than the state-of-the-art method based on sparse representation (p-value < 0.001).

CONCLUSIONS

The authors have developed and validated a novel fully automated method for CBCT segmentation.

Accuracy of software designed for automated localization of the inferior alveolar nerve canal on cone beam CT images

OBJECTIVES

The aim of this study was to design and evaluate a new method for automated localization of the inferior alveolar nerve canal on CBCT images.

METHODS

The proposed method is based on traversing both panoramic and cross-sectional slices. For the panoramic slices, morphological skeletonization is imposed, and a modified Hough transform is used while traversing the cross-sectional slices. A total of 40 CBCT images were randomly selected. Two experts twice located the inferior alveolar nerve canal during two examinations set 6 weeks apart. Agreement between experts was achieved, and the result of this manual technique was considered the gold standard for our study. The distances for the automated method and those determined using the gold standard method were calculated and recorded. The mean time required for the automated detection was also recorded.

RESULTS

The average mean distance error from the baseline was 0.75 ± 0.34 mm. In all, 86% of the detected points had a mean error of <1 mm compared with those determined by the manual gold standard method.

CONCLUSIONS

The proposed method is far more accurate and faster than previous methods. It also provides more accuracy than human annotation within a shorter time.

Automated segmentation of CBCT image using spiral CT atlases and convex optimization

Cone-beam computed tomography (CBCT) is an increasingly utilized imaging modality for the diagnosis and treatment planning of the patients with craniomaxillofacial (CMF) deformities. CBCT scans have relatively low cost and low radiation dose in comparison to conventional spiral CT scans. However, a major limitation of CBCT scans is the widespread image artifacts such as noise, beam hardening and inhomogeneity, causing great difficulties for accurate segmentation of bony structures from soft tissues, as well as separating mandible from maxilla. In this paper, we presented a novel fully automated method for CBCT image segmentation. In this method, we first estimated a patient-specific atlas using a sparse label fusion strategy from predefined spiral CT atlases. This patient-specific atlas was then integrated into a convex segmentation framework based on maximum a posteriori probability for accurate segmentation. Finally, the performance of our method was validated via comparisons with manual ground-truth segmentations.

Automatic detection and classification of teeth in CT data

We propose a fully automatic method for tooth detection and classification in CT or cone-beam CT image data. First we compute an accurate segmentation of the maxilla bone. Based on this segmentation, our method computes a complete and optimal separation of the row of teeth into 16 subregions and classifies the resulting regions as existing or missing teeth. This serves as a prerequisite for further individual tooth segmentation. We show the robustness of our approach by providing extensive validation on 43 clinical head CT scans.

The Digital Bee Brain: Integrating and Managing Neurons in a Common 3D Reference System

The honeybee standard brain (HSB) serves as an interactive tool for relating morphologies of bee brain neurons and provides a reference system for functional and bibliographical properties (http://www.neurobiologie.fu-berlin.de/beebrain/). The ultimate goal is to document not only the morphological network properties of neurons collected from separate brains, but also to establish a graphical user interface for a neuron-related data base. Here, we review the current methods and protocols used to incorporate neuronal reconstructions into the HSB. Our registration protocol consists of two separate steps applied to imaging data from two-channel confocal microscopy scans: (1) The reconstruction of the neuron, facilitated by an automatic extraction of the neuron's skeleton based on threshold segmentation, and (2) the semi-automatic 3D segmentation of the neuropils and their registration with the HSB. The integration of neurons in the HSB is performed by applying the transformation computed in step (2) to the reconstructed neurons of step (1). The most critical issue of this protocol in terms of user interaction time - the segmentation process - is drastically improved by the use of a model-based segmentation process. Furthermore, the underlying statistical shape models (SSM) allow the visualization and analysis of characteristic variations in large sets of bee brain data. The anatomy of neural networks composed of multiple neurons that are registered into the HSB are visualized by depicting the 3D reconstructions together with semantic information with the objective to integrate data from multiple sources (electrophysiology, imaging, immunocytochemistry, molecular biology). Ultimately, this will allow the user to specify cell types and retrieve their morphologies along with physiological characterizations.

Improving deformable surface meshes through omni-directional displacements and MRFs

Deformable surface models are often represented as triangular meshes in image segmentation applications. For a fast and easily regularized deformation onto the target object boundary, the vertices of the mesh are commonly moved along line segments (typically surface normals). However, in case of high mesh curvature, these lines may intersect with the target boundary at "non-corresponding" positions, or even not at all. Consequently, certain deformations cannot be achieved. We propose an approach that allows each vertex to move not only along a line segment, but within a surrounding sphere. We achieve globally regularized deformations via Markov Random Field optimization. We demonstrate the potential of our approach with experiments on synthetic data, as well as an evaluation on 2 x 106 coronoid processes of the mandible in Cone-Beam CTs, and 56 coccyxes (tailbones) in low-resolution CTs.