https://www.cs.ucla.edu/~dt/papers/mia96/mia96.pdf

Deformable models in medical image analysis: a survey

In recent years, many shape representations and geometric algorithms have been proposed for matching 3D shapes. Usually, each algorithm is tested on a different (small) database of 3D models, and thus no direct comparison is available for competing methods. We describe the Princeton Shape Benchmark (PSB), a publicly available database of polygonal models collected from the World Wide Web and a suite of tools for comparing shape matching and classification algorithms. One feature of the benchmark is that it provides multiple semantic labels for each 3D model. For instance, it includes one classification of the 3D models based on function, another that considers function and form, and others based on how the object was constructed (e.g., man-made versus natural objects). We find that experiments with these classifications can expose different properties of shape-based retrieval algorithms. For example, out of 12 shape descriptors tested, extended Gaussian images by B. Horn (1984) performed best for distinguishing man-made from natural objects, while they performed among the worst for distinguishing specific object types. Based on experiments with several different shape descriptors, we conclude that no single descriptor is best for all classifications, and thus the main contribution of this paper is to provide a framework to determine the conditions under which each descriptor performs best.

/pdf/the-princeton-shape-benchmark-2gmwi9i096.pdf

The Princeton Shape Benchmark

BackgroundLung auscultation and bedside chest radiography are routinely used to assess the respiratory condition of ventilated patients with acute respiratory distress syndrome (ARDS). Clinical experience suggests that the diagnostic accuracy of these procedures is poor.MethodsThis prospective study

Comparative Diagnostic Performances of Auscultation, Chest Radiography, and Lung Ultrasonography in Acute Respiratory Distress Syndrome

Recent developments in techniques for modeling, digitizing and visualizing 3D shapes has led to an explosion in the number of available 3D models on the Internet and in domain-specific databases. This has led to the development of 3D shape retrieval systems that, given a query object, retrieve similar 3D objects. For visualization, 3D shapes are often represented as a surface, in particular polygonal meshes, for example in VRML format. Often these models contain holes, intersecting polygons, are not manifold, and do not enclose a volume unambiguously. On the contrary, 3D volume models, such as solid models produced by CAD systems, or voxels models, enclose a volume properly. This paper surveys the literature on methods for content based 3D retrieval, taking into account the applicability to surface models as well as to volume models. The methods are evaluated with respect to several requirements of content based 3D shape retrieval, such as: (1) shape representation requirements, (2) properties of dissimilarity measures, (3) efficiency, (4) discrimination abilities, (5) ability to perform partial matching, (6) robustness, and (7) necessity of pose normalization. Finally, the advantages and limitations of the several approaches in content based 3D shape retrieval are discussed.

/pdf/a-survey-of-content-based-3d-shape-retrieval-methods-1p1e9hurpn.pdf

A survey of content based 3D shape retrieval methods

The American Thoracic Society/European Respiratory Society jointly created a Task Force on "Outcomes for COPD pharmacological trials: from lung function to biomarkers" to inform the chronic obstructive pulmonary disease research community about the possible use and limitations of current outcomes and markers when evaluating the impact of a pharmacological therapy. Based on their review of the published literature, the following document has been prepared with individual sections that address specific outcomes and markers, and a final section that summarises their recommendations.

/pdf/outcomes-for-copd-pharmacological-trials-from-lung-function-4a4k924y7q.pdf

Outcomes for COPD pharmacological trials: From lung function to biomarkers

We address the issue of modeling and quantifying myocardial contraction from 4D MR sequences, and present an unsupervised approach for building and using a statistical 3D motion atlas for the normal heart. This approach relies on a state-of-the-art variational
non rigid registration (NRR) technique using generalized information measures, which allows for robust intra-subject motion estimation and inter-subject anatomical alignment. The atlas is built from a collection of jointly acquired tagged and cine MR exams in short- and long-axis views. Subject-specific non parametric motion estimates are first obtained by incremental NRR of tagged images onto the end-diastolic (ED) frame. Individual motion data are then transformed into the coordinate system
of a reference subject using subject-to-reference mappings derived by NRR of cine ED images. Finally, principal component analysis of aligned motion data is performed for each cardiac phase, yielding a mean model and a set of eigenfields encoding kinematic ariability. The latter define an organ-dedicated hierarchical motion basis which enables parametric motion measurement from arbitrary tagged MR exams. To this end, the atlas is transformed into subject coordinates
by reference-to-subject NRR of ED cine frames. Atlas-based motion estimation is then achieved by parametric NRR of tagged images onto the ED frame,
yielding a compact description of myocardial contraction during diastole.

Building and using a statistical 3D motion atlas for analyzing myocardial contraction in MRI

This paper proposes a novel approach for 3D mesh compression, based on a skinning animation technique. The core of the proposed method is a piecewise affine predictor coupled with a skinning model and a DCT representation of the residuals errors. The experimental evaluation shows that the proposed skinning-based encoder outperforms (with bitrates gains from 47p to 67p) GV, RT, MPEG-4/AFX-IC, D3DMC, PCA and Dynapack techniques. Copyright © 2006 John Wiley & Sons, Ltd.

A skinning approach for dynamic 3D mesh compression: Research Articles

This paper presents a new compression technique for 3D dynamic meshes, referred to as FAMC - Frame-based Animated Mesh Compression, recently promoted within the MPEG-4 standard as Amen-dement 2 of part 16 (AFX -Animation Framework extension). The FAMC approach combines a model-based motion-compensation strategy with transform/predictive coding of residual errors. First, a skinning motion-compensation model is automatically derived from a frame-based representation. Subsequently, either 1) DCT/lifting wavelets or 2) layer-based predictive coding is employed to exploit remaining spatio-temporal correlations in the residual signal. Both motion model parameters and residual signal components are finally encoded by using context-based adaptive binary arithmetic coding (CABAC). The proposed FAMC encoder offers high compression performance with gains of 60% in terms of bit-rate savings relative to previous MPEG-4 technology and of 20% to 40% relative to state-of-the-art techniques. FAMC is well suited for compressing both geometric and photometric (normal vectors, colors...) attributes. In addition, FAMC also supports a rich set of functionalities including streaming, scalability (spatial, temporal and quality) and progressive transmission.

The New MPEG-4/FAMC Standard for Animated 3D Mesh Compression

A computational model of an oscillatory laminar flow of an incompressible Newtonian fluid has been carried out in the proximal part of huaman tracheobronchial trees, either normal or with a strongly stenosed right main bronchus. After acquisition with a multislice spiral CT, the thoracic images are processed to reconstruct the geometry of the trachea and the six first brinchus generations and to virtually travel inside this duct network. The facetisation associated with the three-dimensional reconsturction of the tracheobronchial tree is improved to get a computation-adapted surface triangulation, which leads to a volumic mesh composed of tetrahedra. The Navier-Stokes equations associated with the classical boundary conditions and different values of the flow dimensionless parameters are solved using the finite element method. The airways are supposed to be rigid during rest breathing. The flow distribution among the set of bronchi is determined during the respiratory cycle. Cycle reproducibility and mesh size effects on the numerical results are examined. Helpful qualitative data are provided rather than accurate quantitative results in the context of multimodelling, from inmage processing to numerical simulations.

/pdf/an-image-based-computational-model-of-oscillatory-flow-in-4hwsvvt84e.pdf

An image-based computational model of oscillatory flow in the proximal part of tracheobronchial trees.

In the framework of computer-aided diagnosis, pulmonary airway investigation based on multi-detector computerized tomography (MDCT) requires the development of specific tools for data interaction and analysis. The 3D segmentation of the bronchial tree provides radiologists with appropriate examination modalities such as CT bronchography, for a global analysis, or virtual endoscopy, for a local endoluminal diagnosis. Focusing on the latter modality, this paper proposes a set of advanced navigation and investigation tools based on the automatic extraction of the central axis (CA) of the 3D segmented airways. In the case of complex branching structures, such as the bronchial tree, the automatic CA computation is a challenging problem raising several difficulties related to geometry and topology preservation. In this respect, an original approach is presented, combining 3D distance map information and geodesic front propagation in order to accurately detect branching points and to preserve the original 3D topology of the airways, irrespective to both caliber variability with the bronchial order and to bronchial wall irregularities. The CA information is represented as a multi-valued and hierarchic tree structure, making possible automatic trajectory computation between two given points, bronchial caliber estimation in the plane orthogonal to the bronchus axis at a given location, branch indexation, and so on. These applications are illustrated on clinical data including both normal and pathological airway morphologies.

Francoise Preteux

Papers

Building and using a statistical 3D motion atlas for analyzing myocardial contraction in MRI

A skinning approach for dynamic 3D mesh compression: Research Articles

The New MPEG-4/FAMC Standard for Animated 3D Mesh Compression

An image-based computational model of oscillatory flow in the proximal part of tracheobronchial trees.

Advanced navigation tools for virtual bronchoscopy