Science.gov

Sample records for 3-d model based

  1. Crowdsourcing Based 3d Modeling

    NASA Astrophysics Data System (ADS)

    Somogyi, A.; Barsi, A.; Molnar, B.; Lovas, T.

    2016-06-01

    Web-based photo albums that support organizing and viewing the users' images are widely used. These services provide a convenient solution for storing, editing and sharing images. In many cases, the users attach geotags to the images in order to enable using them e.g. in location based applications on social networks. Our paper discusses a procedure that collects open access images from a site frequently visited by tourists. Geotagged pictures showing the image of a sight or tourist attraction are selected and processed in photogrammetric processing software that produces the 3D model of the captured object. For the particular investigation we selected three attractions in Budapest. To assess the geometrical accuracy, we used laser scanner and DSLR as well as smart phone photography to derive reference values to enable verifying the spatial model obtained from the web-album images. The investigation shows how detailed and accurate models could be derived applying photogrammetric processing software, simply by using images of the community, without visiting the site.

  2. 3-D model-based vehicle tracking.

    PubMed

    Lou, Jianguang; Tan, Tieniu; Hu, Weiming; Yang, Hao; Maybank, Steven J

    2005-10-01

    This paper aims at tracking vehicles from monocular intensity image sequences and presents an efficient and robust approach to three-dimensional (3-D) model-based vehicle tracking. Under the weak perspective assumption and the ground-plane constraint, the movements of model projection in the two-dimensional image plane can be decomposed into two motions: translation and rotation. They are the results of the corresponding movements of 3-D translation on the ground plane (GP) and rotation around the normal of the GP, which can be determined separately. A new metric based on point-to-line segment distance is proposed to evaluate the similarity between an image region and an instantiation of a 3-D vehicle model under a given pose. Based on this, we provide an efficient pose refinement method to refine the vehicle's pose parameters. An improved EKF is also proposed to track and to predict vehicle motion with a precise kinematics model. Experimental results with both indoor and outdoor data show that the algorithm obtains desirable performance even under severe occlusion and clutter.

  3. 3-D model-based vehicle tracking.

    PubMed

    Lou, Jianguang; Tan, Tieniu; Hu, Weiming; Yang, Hao; Maybank, Steven J

    2005-10-01

    This paper aims at tracking vehicles from monocular intensity image sequences and presents an efficient and robust approach to three-dimensional (3-D) model-based vehicle tracking. Under the weak perspective assumption and the ground-plane constraint, the movements of model projection in the two-dimensional image plane can be decomposed into two motions: translation and rotation. They are the results of the corresponding movements of 3-D translation on the ground plane (GP) and rotation around the normal of the GP, which can be determined separately. A new metric based on point-to-line segment distance is proposed to evaluate the similarity between an image region and an instantiation of a 3-D vehicle model under a given pose. Based on this, we provide an efficient pose refinement method to refine the vehicle's pose parameters. An improved EKF is also proposed to track and to predict vehicle motion with a precise kinematics model. Experimental results with both indoor and outdoor data show that the algorithm obtains desirable performance even under severe occlusion and clutter. PMID:16238061

  4. Anatomy-based 3D skeleton extraction from femur model.

    PubMed

    Gharenazifam, Mina; Arbabi, Ehsan

    2014-11-01

    Using 3D models of bones can highly improve accuracy and reliability of orthopaedic evaluation. However, it may impose excessive computational load. This article proposes a fully automatic method for extracting a compact model of the femur from its 3D model. The proposed method works by extracting a 3D skeleton based on the clinical parameters of the femur. Therefore, in addition to summarizing a 3D model of the bone, the extracted skeleton would preserve important clinical and anatomical information. The proposed method has been applied on 3D models of 10 femurs and the results have been evaluated for different resolutions of data.

  5. Image based 3D city modeling : Comparative study

    NASA Astrophysics Data System (ADS)

    Singh, S. P.; Jain, K.; Mandla, V. R.

    2014-06-01

    3D city model is a digital representation of the Earth's surface and it's related objects such as building, tree, vegetation, and some manmade feature belonging to urban area. The demand of 3D city modeling is increasing rapidly for various engineering and non-engineering applications. Generally four main image based approaches were used for virtual 3D city models generation. In first approach, researchers were used Sketch based modeling, second method is Procedural grammar based modeling, third approach is Close range photogrammetry based modeling and fourth approach is mainly based on Computer Vision techniques. SketchUp, CityEngine, Photomodeler and Agisoft Photoscan are the main softwares to represent these approaches respectively. These softwares have different approaches & methods suitable for image based 3D city modeling. Literature study shows that till date, there is no complete such type of comparative study available to create complete 3D city model by using images. This paper gives a comparative assessment of these four image based 3D modeling approaches. This comparative study is mainly based on data acquisition methods, data processing techniques and output 3D model products. For this research work, study area is the campus of civil engineering department, Indian Institute of Technology, Roorkee (India). This 3D campus acts as a prototype for city. This study also explains various governing parameters, factors and work experiences. This research work also gives a brief introduction, strengths and weakness of these four image based techniques. Some personal comment is also given as what can do or what can't do from these softwares. At the last, this study shows; it concluded that, each and every software has some advantages and limitations. Choice of software depends on user requirements of 3D project. For normal visualization project, SketchUp software is a good option. For 3D documentation record, Photomodeler gives good result. For Large city

  6. NoSQL Based 3D City Model Management System

    NASA Astrophysics Data System (ADS)

    Mao, B.; Harrie, L.; Cao, J.; Wu, Z.; Shen, J.

    2014-04-01

    To manage increasingly complicated 3D city models, a framework based on NoSQL database is proposed in this paper. The framework supports import and export of 3D city model according to international standards such as CityGML, KML/COLLADA and X3D. We also suggest and implement 3D model analysis and visualization in the framework. For city model analysis, 3D geometry data and semantic information (such as name, height, area, price and so on) are stored and processed separately. We use a Map-Reduce method to deal with the 3D geometry data since it is more complex, while the semantic analysis is mainly based on database query operation. For visualization, a multiple 3D city representation structure CityTree is implemented within the framework to support dynamic LODs based on user viewpoint. Also, the proposed framework is easily extensible and supports geoindexes to speed up the querying. Our experimental results show that the proposed 3D city management system can efficiently fulfil the analysis and visualization requirements.

  7. 3-D model-based tracking for UAV indoor localization.

    PubMed

    Teulière, Céline; Marchand, Eric; Eck, Laurent

    2015-05-01

    This paper proposes a novel model-based tracking approach for 3-D localization. One main difficulty of standard model-based approach lies in the presence of low-level ambiguities between different edges. In this paper, given a 3-D model of the edges of the environment, we derive a multiple hypotheses tracker which retrieves the potential poses of the camera from the observations in the image. We also show how these candidate poses can be integrated into a particle filtering framework to guide the particle set toward the peaks of the distribution. Motivated by the UAV indoor localization problem where GPS signal is not available, we validate the algorithm on real image sequences from UAV flights.

  8. 3-D model-based tracking for UAV indoor localization.

    PubMed

    Teulière, Céline; Marchand, Eric; Eck, Laurent

    2015-05-01

    This paper proposes a novel model-based tracking approach for 3-D localization. One main difficulty of standard model-based approach lies in the presence of low-level ambiguities between different edges. In this paper, given a 3-D model of the edges of the environment, we derive a multiple hypotheses tracker which retrieves the potential poses of the camera from the observations in the image. We also show how these candidate poses can be integrated into a particle filtering framework to guide the particle set toward the peaks of the distribution. Motivated by the UAV indoor localization problem where GPS signal is not available, we validate the algorithm on real image sequences from UAV flights. PMID:25099967

  9. Robust model-based 3d/3D fusion using sparse matching for minimally invasive surgery.

    PubMed

    Neumann, Dominik; Grbic, Sasa; John, Matthias; Navab, Nassir; Hornegger, Joachim; Ionasec, Razvan

    2013-01-01

    Classical surgery is being disrupted by minimally invasive and transcatheter procedures. As there is no direct view or access to the affected anatomy, advanced imaging techniques such as 3D C-arm CT and C-arm fluoroscopy are routinely used for intra-operative guidance. However, intra-operative modalities have limited image quality of the soft tissue and a reliable assessment of the cardiac anatomy can only be made by injecting contrast agent, which is harmful to the patient and requires complex acquisition protocols. We propose a novel sparse matching approach for fusing high quality pre-operative CT and non-contrasted, non-gated intra-operative C-arm CT by utilizing robust machine learning and numerical optimization techniques. Thus, high-quality patient-specific models can be extracted from the pre-operative CT and mapped to the intra-operative imaging environment to guide minimally invasive procedures. Extensive quantitative experiments demonstrate that our model-based fusion approach has an average execution time of 2.9 s, while the accuracy lies within expert user confidence intervals. PMID:24505663

  10. 3D model-based still image object categorization

    NASA Astrophysics Data System (ADS)

    Petre, Raluca-Diana; Zaharia, Titus

    2011-09-01

    This paper proposes a novel recognition scheme algorithm for semantic labeling of 2D object present in still images. The principle consists of matching unknown 2D objects with categorized 3D models in order to infer the semantics of the 3D object to the image. We tested our new recognition framework by using the MPEG-7 and Princeton 3D model databases in order to label unknown images randomly selected from the web. Results obtained show promising performances, with recognition rate up to 84%, which opens interesting perspectives in terms of semantic metadata extraction from still images/videos.

  11. Gis-Based Smart Cartography Using 3d Modeling

    NASA Astrophysics Data System (ADS)

    Malinverni, E. S.; Tassetti, A. N.

    2013-08-01

    3D City Models have evolved to be important tools for urban decision processes and information systems, especially in planning, simulation, analysis, documentation and heritage management. On the other hand existing and in use numerical cartography is often not suitable to be used in GIS because not geometrically and topologically correctly structured. The research aim is to 3D structure and organize a numeric cartography for GIS and turn it into CityGML standardized features. The work is framed around a first phase of methodological analysis aimed to underline which existing standard (like ISO and OGC rules) can be used to improve the quality requirement of a cartographic structure. Subsequently, from this technical specifics, it has been investigated the translation in formal contents, using an owner interchange software (SketchUp), to support some guide lines implementations to generate a GIS3D structured in GML3. It has been therefore predisposed a test three-dimensional numerical cartography (scale 1:500, generated from range data captured by 3D laser scanner), tested on its quality according to the previous standard and edited when and where necessary. Cad files and shapefiles are converted into a final 3D model (Google SketchUp model) and then exported into a 3D city model (CityGML LoD1/LoD2). The GIS3D structure has been managed in a GIS environment to run further spatial analysis and energy performance estimate, not achievable in a 2D environment. In particular geometrical building parameters (footprint, volume etc.) are computed and building envelop thermal characteristics are derived from. Lastly, a simulation is carried out to deal with asbestos and home renovating charges and show how the built 3D city model can support municipal managers with risk diagnosis of the present situation and development of strategies for a sustainable redevelop.

  12. Thermal 3D modeling system based on 3-view geometry

    NASA Astrophysics Data System (ADS)

    Yu, Sunjin; Kim, Joongrock; Lee, Sangyoun

    2012-11-01

    In this paper, we propose a novel thermal three-dimensional (3D) modeling system that includes 3D shape, visual, and thermal infrared information and solves a registration problem among these three types of information. The proposed system consists of a projector, a visual camera and, a thermal camera (PVT). To generate 3D shape information, we use a structured light technique, which consists of a visual camera and a projector. A thermal camera is added to the structured light system in order to provide thermal information. To solve the correspondence problem between the three sensors, we use three-view geometry. Finally, we obtain registered PVT data, which includes visual, thermal, and 3D shape information. Among various potential applications such as industrial measurements, biological experiments, military usage, and so on, we have adapted the proposed method to biometrics, particularly for face recognition. With the proposed method, we obtain multi-modal 3D face data that includes not only textural information but also data regarding head pose, 3D shape, and thermal information. Experimental results show that the performance of the proposed face recognition system is not limited by head pose variation which is a serious problem in face recognition.

  13. Indoor 3D Route Modeling Based On Estate Spatial Data

    NASA Astrophysics Data System (ADS)

    Zhang, H.; Wen, Y.; Jiang, J.; Huang, W.

    2014-04-01

    Indoor three-dimensional route model is essential for space intelligence navigation and emergency evacuation. This paper is motivated by the need of constructing indoor route model automatically and as far as possible. By comparing existing building data sources, this paper firstly explained the reason why the estate spatial management data is chosen as the data source. Then, an applicable method of construction three-dimensional route model in a building is introduced by establishing the mapping relationship between geographic entities and their topological expression. This data model is a weighted graph consist of "node" and "path" to express the spatial relationship and topological structure of a building components. The whole process of modelling internal space of a building is addressed by two key steps: (1) each single floor route model is constructed, including path extraction of corridor using Delaunay triangulation algorithm with constrained edge, fusion of room nodes into the path; (2) the single floor route model is connected with stairs and elevators and the multi-floor route model is eventually generated. In order to validate the method in this paper, a shopping mall called "Longjiang New City Plaza" in Nanjing is chosen as a case of study. And the whole building space is constructed according to the modelling method above. By integrating of existing path finding algorithm, the usability of this modelling method is verified, which shows the indoor three-dimensional route modelling method based on estate spatial data in this paper can support indoor route planning and evacuation route design very well.

  14. A new approach towards image based virtual 3D city modeling by using close range photogrammetry

    NASA Astrophysics Data System (ADS)

    Singh, S. P.; Jain, K.; Mandla, V. R.

    2014-05-01

    3D city model is a digital representation of the Earth's surface and it's related objects such as building, tree, vegetation, and some manmade feature belonging to urban area. The demand of 3D city modeling is increasing day to day for various engineering and non-engineering applications. Generally three main image based approaches are using for virtual 3D city models generation. In first approach, researchers used Sketch based modeling, second method is Procedural grammar based modeling and third approach is Close range photogrammetry based modeling. Literature study shows that till date, there is no complete solution available to create complete 3D city model by using images. These image based methods also have limitations This paper gives a new approach towards image based virtual 3D city modeling by using close range photogrammetry. This approach is divided into three sections. First, data acquisition process, second is 3D data processing, and third is data combination process. In data acquisition process, a multi-camera setup developed and used for video recording of an area. Image frames created from video data. Minimum required and suitable video image frame selected for 3D processing. In second section, based on close range photogrammetric principles and computer vision techniques, 3D model of area created. In third section, this 3D model exported to adding and merging of other pieces of large area. Scaling and alignment of 3D model was done. After applying the texturing and rendering on this model, a final photo-realistic textured 3D model created. This 3D model transferred into walk-through model or in movie form. Most of the processing steps are automatic. So this method is cost effective and less laborious. Accuracy of this model is good. For this research work, study area is the campus of department of civil engineering, Indian Institute of Technology, Roorkee. This campus acts as a prototype for city. Aerial photography is restricted in many country

  15. The Martian Water Cycle Based on 3-D Modeling

    NASA Technical Reports Server (NTRS)

    Houben, H.; Haberle, R. M.; Joshi, M. M.

    1999-01-01

    Understanding the distribution of Martian water is a major goal of the Mars Surveyor program. However, until the bulk of the data from the nominal missions of TES, PMIRR, GRS, MVACS, and the DS2 probes are available, we are bound to be in a state where much of our knowledge of the seasonal behavior of water is based on theoretical modeling. We therefore summarize the results of this modeling at the present time. The most complete calculations come from a somewhat simplified treatment of the Martian climate system which is capable of simulating many decades of weather. More elaborate meteorological models are now being applied to study of the problem. The results show a high degree of consistency with observations of aspects of the Martian water cycle made by Viking MAWD, a large number of ground-based measurements of atmospheric column water vapor, studies of Martian frosts, and the widespread occurrence of water ice clouds. Additional information is contained in the original extended abstract.

  16. Management and services for large-scale virtual 3D urban model data based on network

    NASA Astrophysics Data System (ADS)

    He, Zhengwei; Chen, Jing; Wu, Huayi

    2008-10-01

    The buildings in modern city are complex and diverse, and the quantity is huge. These bring very big challenge for constructing 3D GIS under network circumstance and eventually realizing the Digital Earth. After analyzed the characteristic of network service about massive 3D urban building model data, this paper focuses on the organization and management of spatial data and the network services strategy, proposes a progressive network transmission schema based on the spatial resolution and the component elements of 3D building model data. Next, this paper put forward multistage-link three-dimensional spatial data organization model and encoding method of spatial index based on fully level quadtree structure. Then, a virtual earth platform, called GeoGlobe, was developed using above theory. Experimental results show that above 3D spatial data management model and service theory can availably provide network services for large-scale 3D urban model data. The application results and user experience good .

  17. Evaluation of Model Recognition for Grammar-Based Automatic 3d Building Model Reconstruction

    NASA Astrophysics Data System (ADS)

    Yu, Qian; Helmholz, Petra; Belton, David

    2016-06-01

    In recent years, 3D city models are in high demand by many public and private organisations, and the steadily growing capacity in both quality and quantity are increasing demand. The quality evaluation of these 3D models is a relevant issue both from the scientific and practical points of view. In this paper, we present a method for the quality evaluation of 3D building models which are reconstructed automatically from terrestrial laser scanning (TLS) data based on an attributed building grammar. The entire evaluation process has been performed in all the three dimensions in terms of completeness and correctness of the reconstruction. Six quality measures are introduced to apply on four datasets of reconstructed building models in order to describe the quality of the automatic reconstruction, and also are assessed on their validity from the evaluation point of view.

  18. XML-based 3D model visualization and simulation framework for dynamic models

    NASA Astrophysics Data System (ADS)

    Kim, Taewoo; Fishwick, Paul A.

    2002-07-01

    Relatively recent advances in computer technology enable us to create three-dimensional (3D) dynamic models and simulate them within a 3D web environment. The use of such models is especially valuable when teaching simulation, and the concepts behind dynamic models, since the models are made more accessible to the students. Students tend to enjoy a construction process in which they are able to employ their own cultural and aesthetic forms. The challenge is to create a language that allows for a grammar for modeling, while simultaneously permitting arbitrary presentation styles. For further flexibility, we need an effective way to represent and simulate dynamic models that can be shared by modelers over the Internet. We present an Extensible Markup Language (XML)-based framework that will guide a modeler in creating personalized 3D models, visualizing its dynamic behaviors, and simulating the created models. A model author will use XML files to represent geometries and topology of a dynamic model. Model Fusion Engine, written in Extensible Stylesheet Language Transformation (XSLT), expedites the modeling process by automating the creation of dynamic models with the user-defined XML files. Modelers can also link simulation programs with a created model to analyze the characteristics of the model. The advantages of this system lie in the education of modeling and simulating dynamic models, and in the exploitation of visualizing the dynamic model behaviors.

  19. A Gaussian Mixture Model-Based Continuous Boundary Detection for 3D Sensor Networks

    PubMed Central

    Chen, Jiehui; Salim, Mariam B.; Matsumoto, Mitsuji

    2010-01-01

    This paper proposes a high precision Gaussian Mixture Model-based novel Boundary Detection 3D (BD3D) scheme with reasonable implementation cost for 3D cases by selecting a minimum number of Boundary sensor Nodes (BNs) in continuous moving objects. It shows apparent advantages in that two classes of boundary and non-boundary sensor nodes can be efficiently classified using the model selection techniques for finite mixture models; furthermore, the set of sensor readings within each sensor node’s spatial neighbors is formulated using a Gaussian Mixture Model; different from DECOMO [1] and COBOM [2], we also formatted a BN Array with an additional own sensor reading to benefit selecting Event BNs (EBNs) and non-EBNs from the observations of BNs. In particular, we propose a Thick Section Model (TSM) to solve the problem of transition between 2D and 3D. It is verified by simulations that the BD3D 2D model outperforms DECOMO and COBOM in terms of average residual energy and the number of BNs selected, while the BD3D 3D model demonstrates sound performance even for sensor networks with low densities especially when the value of the sensor transmission range (r) is larger than the value of Section Thickness (d) in TSM. We have also rigorously proved its correctness for continuous geometric domains and full robustness for sensor networks over 3D terrains. PMID:22163619

  20. Blind watermark algorithm on 3D motion model based on wavelet transform

    NASA Astrophysics Data System (ADS)

    Qi, Hu; Zhai, Lang

    2013-12-01

    With the continuous development of 3D vision technology, digital watermark technology, as the best choice for copyright protection, has fused with it gradually. This paper proposed a blind watermark plan of 3D motion model based on wavelet transform, and made it loaded into the Vega real-time visual simulation system. Firstly, put 3D model into affine transform, and take the distance from the center of gravity to the vertex of 3D object in order to generate a one-dimensional discrete signal; then make this signal into wavelet transform to change its frequency coefficients and embed watermark, finally generate 3D motion model with watermarking. In fixed affine space, achieve the robustness in translation, revolving and proportion transforms. The results show that this approach has better performances not only in robustness, but also in watermark- invisibility.

  1. 3D deformable organ model based liver motion tracking in ultrasound videos

    NASA Astrophysics Data System (ADS)

    Kim, Jung-Bae; Hwang, Youngkyoo; Oh, Young-Taek; Bang, Won-Chul; Lee, Heesae; Kim, James D. K.; Kim, Chang Yeong

    2013-03-01

    This paper presents a novel method of using 2D ultrasound (US) cine images during image-guided therapy to accurately track the 3D position of a tumor even when the organ of interest is in motion due to patient respiration. Tracking is possible thanks to a 3D deformable organ model we have developed. The method consists of three processes in succession. The first process is organ modeling where we generate a personalized 3D organ model from high quality 3D CT or MR data sets captured during three different respiratory phases. The model includes the organ surface, vessel and tumor, which can all deform and move in accord with patient respiration. The second process is registration of the organ model to 3D US images. From 133 respiratory phase candidates generated from the deformable organ model, we resolve the candidate that best matches the 3D US images according to vessel centerline and surface. As a result, we can determine the position of the US probe. The final process is real-time tracking using 2D US cine images captured by the US probe. We determine the respiratory phase by tracking the diaphragm on the image. The 3D model is then deformed according to respiration phase and is fitted to the image by considering the positions of the vessels. The tumor's 3D positions are then inferred based on respiration phase. Testing our method on real patient data, we have found the accuracy of 3D position is within 3.79mm and processing time is 5.4ms during tracking.

  2. A Secret 3D Model Sharing Scheme with Reversible Data Hiding Based on Space Subdivision

    NASA Astrophysics Data System (ADS)

    Tsai, Yuan-Yu

    2016-03-01

    Secret sharing is a highly relevant research field, and its application to 2D images has been thoroughly studied. However, secret sharing schemes have not kept pace with the advances of 3D models. With the rapid development of 3D multimedia techniques, extending the application of secret sharing schemes to 3D models has become necessary. In this study, an innovative secret 3D model sharing scheme for point geometries based on space subdivision is proposed. Each point in the secret point geometry is first encoded into a series of integer values that fall within [0, p - 1], where p is a predefined prime number. The share values are derived by substituting the specified integer values for all coefficients of the sharing polynomial. The surface reconstruction and the sampling concepts are then integrated to derive a cover model with sufficient model complexity for each participant. Finally, each participant has a separate 3D stego model with embedded share values. Experimental results show that the proposed technique supports reversible data hiding and the share values have higher levels of privacy and improved robustness. This technique is simple and has proven to be a feasible secret 3D model sharing scheme.

  3. Quantitative Analysis and Modeling of 3-D TSV-Based Power Delivery Architectures

    NASA Astrophysics Data System (ADS)

    He, Huanyu

    As 3-D technology enters the commercial production stage, it is critical to understand different 3-D power delivery architectures on the stacked ICs and packages with through-silicon vias (TSVs). Appropriate design, modeling, analysis, and optimization approaches of the 3-D power delivery system are of foremost significance and great practical interest to the semiconductor industry in general. Based on fundamental physics of 3-D integration components, the objective of this thesis work is to quantitatively analyze the power delivery for 3D-IC systems, develop appropriate physics-based models and simulation approaches, understand the key issues, and provide potential solutions for design of 3D-IC power delivery architectures. In this work, a hybrid simulation approach is adopted as the major approach along with analytical method to examine 3-D power networks. Combining electromagnetic (EM) tools and circuit simulators, the hybrid approach is able to analyze and model micrometer-scale components as well as centimeter-scale power delivery system with high accuracy and efficiency. The parasitic elements of the components on the power delivery can be precisely modeled by full-wave EM solvers. Stack-up circuit models for the 3-D power delivery networks (PDNs) are constructed through a partition and assembly method. With the efficiency advantage of the SPICE circuit simulation, the overall 3-D system power performance can be analyzed and the 3-D power delivery architectures can be evaluated in a short computing time. The major power delivery issues are the voltage drop (IR drop) and voltage noise. With a baseline of 3-D power delivery architecture, the on-chip PDNs of TSV-based chip stacks are modeled and analyzed for the IR drop and AC noise. The basic design factors are evaluated using the hybrid approach, such as the number of stacked chips, the number of TSVs, and the TSV arrangement. Analytical formulas are also developed to evaluate the IR drop in 3-D chip stack in

  4. 3D model-based catheter tracking for motion compensation in EP procedures

    NASA Astrophysics Data System (ADS)

    Brost, Alexander; Liao, Rui; Hornegger, Joachim; Strobel, Norbert

    2010-02-01

    Atrial fibrillation is the most common sustained heart arrhythmia and a leading cause of stroke. Its treatment by radio-frequency catheter ablation, performed using fluoroscopic image guidance, is gaining increasingly more importance. Two-dimensional fluoroscopic navigation can take advantage of overlay images derived from pre-operative 3-D data to add anatomical details otherwise not visible under X-ray. Unfortunately, respiratory motion may impair the utility of these static overlay images for catheter navigation. We developed an approach for image-based 3-D motion compensation as a solution to this problem. A bi-plane C-arm system is used to take X-ray images of a special circumferential mapping catheter from two directions. In the first step of the method, a 3-D model of the device is reconstructed. Three-dimensional respiratory motion at the site of ablation is then estimated by tracking the reconstructed catheter model in 3-D. This step involves bi-plane fluoroscopy and 2-D/3-D registration. Phantom data and clinical data were used to assess our model-based catheter tracking method. Experiments involving a moving heart phantom yielded an average 2-D tracking error of 1.4 mm and an average 3-D tracking error of 1.1 mm. Our evaluation of clinical data sets comprised 469 bi-plane fluoroscopy frames (938 monoplane fluoroscopy frames). We observed an average 2-D tracking error of 1.0 mm +/- 0.4 mm and an average 3-D tracking error of 0.8 mm +/- 0.5 mm. These results demonstrate that model-based motion-compensation based on 2-D/3-D registration is both feasible and accurate.

  5. 3D fluoroscopic image estimation using patient-specific 4DCBCT-based motion models.

    PubMed

    Dhou, S; Hurwitz, M; Mishra, P; Cai, W; Rottmann, J; Li, R; Williams, C; Wagar, M; Berbeco, R; Ionascu, D; Lewis, J H

    2015-05-01

    3D fluoroscopic images represent volumetric patient anatomy during treatment with high spatial and temporal resolution. 3D fluoroscopic images estimated using motion models built using 4DCT images, taken days or weeks prior to treatment, do not reliably represent patient anatomy during treatment. In this study we developed and performed initial evaluation of techniques to develop patient-specific motion models from 4D cone-beam CT (4DCBCT) images, taken immediately before treatment, and used these models to estimate 3D fluoroscopic images based on 2D kV projections captured during treatment. We evaluate the accuracy of 3D fluoroscopic images by comparison to ground truth digital and physical phantom images. The performance of 4DCBCT-based and 4DCT-based motion models are compared in simulated clinical situations representing tumor baseline shift or initial patient positioning errors. The results of this study demonstrate the ability for 4DCBCT imaging to generate motion models that can account for changes that cannot be accounted for with 4DCT-based motion models. When simulating tumor baseline shift and patient positioning errors of up to 5 mm, the average tumor localization error and the 95th percentile error in six datasets were 1.20 and 2.2 mm, respectively, for 4DCBCT-based motion models. 4DCT-based motion models applied to the same six datasets resulted in average tumor localization error and the 95th percentile error of 4.18 and 5.4 mm, respectively. Analysis of voxel-wise intensity differences was also conducted for all experiments. In summary, this study demonstrates the feasibility of 4DCBCT-based 3D fluoroscopic image generation in digital and physical phantoms and shows the potential advantage of 4DCBCT-based 3D fluoroscopic image estimation when there are changes in anatomy between the time of 4DCT imaging and the time of treatment delivery.

  6. High efficient methods of content-based 3D model retrieval

    NASA Astrophysics Data System (ADS)

    Wu, Yuanhao; Tian, Ling; Li, Chenggang

    2013-03-01

    Content-based 3D model retrieval is of great help to facilitate the reuse of existing designs and to inspire designers during conceptual design. However, there is still a gap to apply it in industry due to the low time efficiency. This paper presents two new methods with high efficiency to build a Content-based 3D model retrieval system. First, an improvement is made on the "Shape Distribution (D2)" algorithm, and a new algorithm named "Quick D2" is proposed. Four sample 3D mechanical models are used in an experiment to compare the time cost of the two algorithms. The result indicates that the time cost of Quick D2 is much lower than that of D2, while the descriptors extracted by the two algorithms are almost the same. Second, an expandable 3D model repository index method with high performance, namely, RBK index, is presented. On the basis of RBK index, the search space is pruned effectively during the search process, leading to a speed up of the whole system. The factors that influence the values of the key parameters of RBK index are discussed and an experimental method to find the optimal values of the key parameters is given. Finally, "3D Searcher", a content-based 3D model retrieval system is developed. By using the methods proposed, the time cost for the system to respond one query online is reduced by 75% on average. The system has been implemented in a manufacturing enterprise, and practical query examples during a case of the automobile rear axle design are also shown. The research method presented shows a new research perspective and can effectively improve the content-based 3D model retrieval efficiency.

  7. Comparison of The Hillslope-storage Boussinesq Model With A 3-d Richards' Based Model

    NASA Astrophysics Data System (ADS)

    Hilberts, A.; Troch, P.; Paniconi, C.; van Loon, E.

    Hillslope hydrology can be studied by means of Boussinesq models based on hy- draulic groundwater theory. For representing hydrologic processes at the catch- ment scale, however, the applicability of this approach is limited due to its one- dimensionality, homogeneous parameters, restrictive initial or boundary conditions, etc. For general applications, more complex models based on the 3D Richards are capable of giving a more detailed representation of dynamic hillslope processes than Boussinesq models, but have the drawback of being computationally and data inten- sive when applied on large scales. We will present the structure and behavior of a re- cently developed model whereby a 1D Boussinesq representation of subsurface flow in sloping aquifers has been extended to hillslopes of arbitrary geometry by incorpo- rating the width function w(x) into the governing equation, where x is the distance along the length of the hillslope. The conversion of the 1D model into a quasi-3D rep- resentation is based on a method for collapsing a 3D soil mantle into a storage capacity profile, and thus the governing equation is expressed in terms of hillslope storage in- stead of water table height. The model is solved numerically, can handle spatially and temporally variable parameters, and allows for the computation of subsurface flow and saturation excess overland flow. We have assessed the model's response under topo- graphic and geomorphologic characteristics that have an important control on hillslope dynamics, and have compared this response with that of well-known models such as Richards equation and kinematic wave models. In particular, comparative simulations with a 3D Richards equation-based finite element model will examine the behavior of the hillslope-storage Boussinesq model for different scenarios (e.g., precipitation, free drainage). The simulations will be conducted on nine characteristic hillslopes types, obtained by combining three plan shapes (concave

  8. Image-Based Airborne LiDAR Point Cloud Encoding for 3d Building Model Retrieval

    NASA Astrophysics Data System (ADS)

    Chen, Yi-Chen; Lin, Chao-Hung

    2016-06-01

    With the development of Web 2.0 and cyber city modeling, an increasing number of 3D models have been available on web-based model-sharing platforms with many applications such as navigation, urban planning, and virtual reality. Based on the concept of data reuse, a 3D model retrieval system is proposed to retrieve building models similar to a user-specified query. The basic idea behind this system is to reuse these existing 3D building models instead of reconstruction from point clouds. To efficiently retrieve models, the models in databases are compactly encoded by using a shape descriptor generally. However, most of the geometric descriptors in related works are applied to polygonal models. In this study, the input query of the model retrieval system is a point cloud acquired by Light Detection and Ranging (LiDAR) systems because of the efficient scene scanning and spatial information collection. Using Point clouds with sparse, noisy, and incomplete sampling as input queries is more difficult than that by using 3D models. Because that the building roof is more informative than other parts in the airborne LiDAR point cloud, an image-based approach is proposed to encode both point clouds from input queries and 3D models in databases. The main goal of data encoding is that the models in the database and input point clouds can be consistently encoded. Firstly, top-view depth images of buildings are generated to represent the geometry surface of a building roof. Secondly, geometric features are extracted from depth images based on height, edge and plane of building. Finally, descriptors can be extracted by spatial histograms and used in 3D model retrieval system. For data retrieval, the models are retrieved by matching the encoding coefficients of point clouds and building models. In experiments, a database including about 900,000 3D models collected from the Internet is used for evaluation of data retrieval. The results of the proposed method show a clear superiority

  9. HOSVD-Based 3D Active Appearance Model: Segmentation of Lung Fields in CT Images.

    PubMed

    Wang, Qingzhu; Kang, Wanjun; Hu, Haihui; Wang, Bin

    2016-07-01

    An Active Appearance Model (AAM) is a computer vision model which can be used to effectively segment lung fields in CT images. However, the fitting result is often inadequate when the lungs are affected by high-density pathologies. To overcome this problem, we propose a Higher-order Singular Value Decomposition (HOSVD)-based Three-dimensional (3D) AAM. An evaluation was performed on 310 diseased lungs form the Lung Image Database Consortium Image Collection. Other contemporary AAMs operate directly on patterns represented by vectors, i.e., before applying the AAM to a 3D lung volume,it has to be vectorized first into a vector pattern by some technique like concatenation. However, some implicit structural or local contextual information may be lost in this transformation. According to the nature of the 3D lung volume, HOSVD is introduced to represent and process the lung in tensor space. Our method can not only directly operate on the original 3D tensor patterns, but also efficiently reduce the computer memory usage. The evaluation resulted in an average Dice coefficient of 97.0 % ± 0.59 %, a mean absolute surface distance error of 1.0403 ± 0.5716 mm, a mean border positioning errors of 0.9187 ± 0.5381 pixel, and a Hausdorff Distance of 20.4064 ± 4.3855, respectively. Experimental results showed that our methods delivered significant and better segmentation results, compared with the three other model-based lung segmentation approaches, namely 3D Snake, 3D ASM and 3D AAM. PMID:27277277

  10. Interactive Cosmetic Makeup of a 3D Point-Based Face Model

    NASA Astrophysics Data System (ADS)

    Kim, Jeong-Sik; Choi, Soo-Mi

    We present an interactive system for cosmetic makeup of a point-based face model acquired by 3D scanners. We first enhance the texture of a face model in 3D space using low-pass Gaussian filtering, median filtering, and histogram equalization. The user is provided with a stereoscopic display and haptic feedback, and can perform simulated makeup tasks including the application of foundation, color makeup, and lip gloss. Fast rendering is achieved by processing surfels using the GPU, and we use a BSP tree data structure and a dynamic local refinement of the facial surface to provide interactive haptics. We have implemented a prototype system and evaluated its performance.

  11. Extracting valley-ridge lines from point-cloud-based 3D fingerprint models.

    PubMed

    Pang, Xufang; Song, Zhan; Xie, Wuyuan

    2013-01-01

    3D fingerprinting is an emerging technology with the distinct advantage of touchless operation. More important, 3D fingerprint models contain more biometric information than traditional 2D fingerprint images. However, current approaches to fingerprint feature detection usually must transform the 3D models to a 2D space through unwrapping or other methods, which might introduce distortions. A new approach directly extracts valley-ridge features from point-cloud-based 3D fingerprint models. It first applies the moving least-squares method to fit a local paraboloid surface and represent the local point cloud area. It then computes the local surface's curvatures and curvature tensors to facilitate detection of the potential valley and ridge points. The approach projects those points to the most likely valley-ridge lines, using statistical means such as covariance analysis and cross correlation. To finally extract the valley-ridge lines, it grows the polylines that approximate the projected feature points and removes the perturbations between the sampled points. Experiments with different 3D fingerprint models demonstrate this approach's feasibility and performance.

  12. ODTLES : a model for 3D turbulent flow based on one-dimensional turbulence modeling concepts.

    SciTech Connect

    McDermott, Randy; Kerstein, Alan R.; Schmidt, Rodney Cannon

    2005-01-01

    This report describes an approach for extending the one-dimensional turbulence (ODT) model of Kerstein [6] to treat turbulent flow in three-dimensional (3D) domains. This model, here called ODTLES, can also be viewed as a new LES model. In ODTLES, 3D aspects of the flow are captured by embedding three, mutually orthogonal, one-dimensional ODT domain arrays within a coarser 3D mesh. The ODTLES model is obtained by developing a consistent approach for dynamically coupling the different ODT line sets to each other and to the large scale processes that are resolved on the 3D mesh. The model is implemented computationally and its performance is tested and evaluated by performing simulations of decaying isotropic turbulence, a standard turbulent flow benchmarking problem.

  13. 3-D world modeling with updating capability based on combinatorial geometry

    SciTech Connect

    Goldstein, M.; Pin, F.G.; de Saussure, G.; Weisbin, C.R.

    1987-01-01

    This paper describes a 3-D world modeling technique using range data. Range data quantify the distances from the sensor focal plane to the object surface, i.e., the 3-D coordinates of discrete points on the object surface are known. The approach proposed herein for 3-D world modeling is based on the Combinatorial Geometry (CG) Method which is widely used in Monte Carlo particle transport calculations. First, each measured point on the object surface is surrounded by a small sphere with a radius determined by the range to that point. Then, the 3-D shapes of the visible surfaces are obtained by taking the (Boolean) union of all the spheres. The result is an unambiguous representation of the object's boundary surfaces. The ''pre-learned'' partial knowledge of the environment can be also represented using the CG Method with a relatively small amount of data. Using the CG type of representation, distances in desired directions to boundary surfaces of various objects are efficiently calculated. This feature is particularly useful for continuously verifying the world model against the data provided by a range finder, and for integrating range data from successive locations of the robot during motion. The efficiency of the proposed approach is illustrated by simulations of a spherical robot in a 3-D room in the presence of moving obstacles and inadequate prelearned partial knowledge of the environment.

  14. The 3-D world modeling with updating capability based on combinatorial geometry

    NASA Technical Reports Server (NTRS)

    Goldstein, M.; Pin, F. G.; Desaussure, G.; Weisbin, C. R.

    1987-01-01

    A 3-D world modeling technique using range data is discribed. Range data quantify the distances from the sensor focal plane to the object surface, i.e., the 3-D coordinates of discrete points on the object surface are known. The approach proposed herein for 3-D world modeling is based on the Combinatorial Geometry (CG) method which is widely used in Monte Carlo particle transport calculations. First, each measured point on the object surface is surrounded by a small sphere with a radius determined by the range to that point. Then, the 3-D shapes of the visible surfaces are obtained by taking the (Boolean) union of all the spheres. The result is an unambiguous representation of the object's boundary surfaces. The pre-learned partial knowledge of the environment can be also represented using the CG Method with a relatively small amount of data. Using the CG type of representation, distances in desired directions to boundary surfaces of various objects are efficiently calculated. This feature is particularly useful for continuously verifying the world model against the data provided by a range finder, and for integrating range data from successive locations of the robot during motion. The efficiency of the proposed approach is illustrated by simulations of a spherical robot in a 3-D room in the presence of moving obstacles and inadequate prelearned partial knowledge of the environment.

  15. Matching Aerial Images to 3d Building Models Based on Context-Based Geometric Hashing

    NASA Astrophysics Data System (ADS)

    Jung, J.; Bang, K.; Sohn, G.; Armenakis, C.

    2016-06-01

    In this paper, a new model-to-image framework to automatically align a single airborne image with existing 3D building models using geometric hashing is proposed. As a prerequisite process for various applications such as data fusion, object tracking, change detection and texture mapping, the proposed registration method is used for determining accurate exterior orientation parameters (EOPs) of a single image. This model-to-image matching process consists of three steps: 1) feature extraction, 2) similarity measure and matching, and 3) adjustment of EOPs of a single image. For feature extraction, we proposed two types of matching cues, edged corner points representing the saliency of building corner points with associated edges and contextual relations among the edged corner points within an individual roof. These matching features are extracted from both 3D building and a single airborne image. A set of matched corners are found with given proximity measure through geometric hashing and optimal matches are then finally determined by maximizing the matching cost encoding contextual similarity between matching candidates. Final matched corners are used for adjusting EOPs of the single airborne image by the least square method based on co-linearity equations. The result shows that acceptable accuracy of single image's EOP can be achievable by the proposed registration approach as an alternative to labour-intensive manual registration process.

  16. 3-D world modeling based on combinatorial geometry for autonomous robot navigation

    SciTech Connect

    Goldstein, M.; Pin, F.G.; de Saussure, G.; Weisbin, C.R.

    1987-01-01

    In applications of robotics to surveillance and mapping at nuclear facilities, the scene to be described is fundamentally three-dimensional. Usually, only partial information concerning the 3-D environment is known a-priori. Using an autonomous robot, this information may be updated using range data to provide an accurate model of the environment. Range data quantify the distances from the sensor focal plane to the object surface. In other words, the 3-D coordinates of discrete points on the object surface are known. The approach proposed herein for 3-D world modeling is based on the Combinatorial Geometry (C.G.) Method which is widely used in Monte Carlo particle transport calculations. First, each measured point on the object surface is surrounded by a small solid sphere with a radius determined by the range to that point. Then, the 3-D shapes of the visible surfaces are obtained by taking the (Boolean) union of all the spheres. The result is a concise and unambiguous representation of the object's boundary surfaces. The distances from discrete points on the robot's boundary surface to various objects are calculated effectively using the C.G. type of representation. This feature is particularly useful for navigation purposes. The efficiency of the proposed approach is illustrated by a simulation of a spherical robot navigating in a 3-D room with several static obstacles.

  17. 3D model based visualisation using dynamic models: problems with standard software and extensive strategies

    NASA Astrophysics Data System (ADS)

    Appelt, Veit; Shvetsov, Vladimir

    2006-04-01

    For projects concerning modification of urban structures or landscape, it is essential to have a visualisation before, during and after the planning. It conveys an impression of existing city structures or newly planned buildings roads, railways in 3D reality it helps to gain public acceptance. The design of such constructions makes high demands on geometry and planning technology. The construction project, as a 3D object, must therefore be assessed in whole and only this leads to a comprehensive evaluation of alignment, design and following up safety. On the basis of surveying and planning data, a 3D model fitted together of several information levels.

  18. Model-based 3D human shape estimation from silhouettes for virtual fitting

    NASA Astrophysics Data System (ADS)

    Saito, Shunta; Kouchi, Makiko; Mochimaru, Masaaki; Aoki, Yoshimitsu

    2014-03-01

    We propose a model-based 3D human shape reconstruction system from two silhouettes. Firstly, we synthesize a deformable body model from 3D human shape database consists of a hundred whole body mesh models. Each mesh model is homologous, so that it has the same topology and same number of vertices among all models. We perform principal component analysis (PCA) on the database and synthesize an Active Shape Model (ASM). ASM allows changing the body type of the model with a few parameters. The pose changing of our model can be achieved by reconstructing the skeleton structures from implanted joints of the model. By applying pose changing after body type deformation, our model can represents various body types and any pose. We apply the model to the problem of 3D human shape reconstruction from front and side silhouette. Our approach is simply comparing the contours between the model's and input silhouettes', we then use only torso part contour of the model to reconstruct whole shape. We optimize the model parameters by minimizing the difference between corresponding silhouettes by using a stochastic, derivative-free non-linear optimization method, CMA-ES.

  19. Model-based risk assessment for motion effects in 3D radiotherapy of lung tumors

    NASA Astrophysics Data System (ADS)

    Werner, René; Ehrhardt, Jan; Schmidt-Richberg, Alexander; Handels, Heinz

    2012-02-01

    Although 4D CT imaging becomes available in an increasing number of radiotherapy facilities, 3D imaging and planning is still standard in current clinical practice. In particular for lung tumors, respiratory motion is a known source of uncertainty and should be accounted for during radiotherapy planning - which is difficult by using only a 3D planning CT. In this contribution, we propose applying a statistical lung motion model to predict patients' motion patterns and to estimate dosimetric motion effects in lung tumor radiotherapy if only 3D images are available. Being generated based on 4D CT images of patients with unimpaired lung motion, the model tends to overestimate lung tumor motion. It therefore promises conservative risk assessment regarding tumor dose coverage. This is exemplarily evaluated using treatment plans of lung tumor patients with different tumor motion patterns and for two treatment modalities (conventional 3D conformal radiotherapy and step-&- shoot intensity modulated radiotherapy). For the test cases, 4D CT images are available. Thus, also a standard registration-based 4D dose calculation is performed, which serves as reference to judge plausibility of the modelbased 4D dose calculation. It will be shown that, if combined with an additional simple patient-specific breathing surrogate measurement (here: spirometry), the model-based dose calculation provides reasonable risk assessment of respiratory motion effects.

  20. A 3D Model Based Imdoor Navigation System for Hubei Provincial Museum

    NASA Astrophysics Data System (ADS)

    Xu, W.; Kruminaite, M.; Onrust, B.; Liu, H.; Xiong, Q.; Zlatanova, S.

    2013-11-01

    3D models are more powerful than 2D maps for indoor navigation in a complicate space like Hubei Provincial Museum because they can provide accurate descriptions of locations of indoor objects (e.g., doors, windows, tables) and context information of these objects. In addition, the 3D model is the preferred navigation environment by the user according to the survey. Therefore a 3D model based indoor navigation system is developed for Hubei Provincial Museum to guide the visitors of museum. The system consists of three layers: application, web service and navigation, which is built to support localization, navigation and visualization functions of the system. There are three main strengths of this system: it stores all data needed in one database and processes most calculations on the webserver which make the mobile client very lightweight, the network used for navigation is extracted semi-automatically and renewable, the graphic user interface (GUI), which is based on a game engine, has high performance of visualizing 3D model on a mobile display.

  1. Automatic measurement of vertebral body deformations in CT images based on a 3D parametric model

    NASA Astrophysics Data System (ADS)

    Štern, Darko; Bürmen, Miran; Njagulj, Vesna; Likar, Boštjan; Pernuš, Franjo; Vrtovec, Tomaž

    2012-03-01

    Accurate and objective evaluation of vertebral body deformations represents an important part of the clinical diagnostics and therapy of pathological conditions affecting the spine. Although modern clinical practice is oriented towards threedimensional (3D) imaging techniques, the established methods for the evaluation of vertebral body deformations are based on measurements in two-dimensional (2D) X-ray images. In this paper, we propose a method for automatic measurement of vertebral body deformations in computed tomography (CT) images that is based on efficient modeling of the vertebral body shape with a 3D parametric model. By fitting the 3D model to the vertebral body in the image, quantitative description of normal and pathological vertebral bodies is obtained from the value of 25 parameters of the model. The evaluation of vertebral body deformations is based on the distance of the observed vertebral body from the distribution of the parameter values of normal vertebral bodies in the parametric space. The distribution is obtained from 80 normal vertebral bodies in the training data set and verified with eight normal vertebral bodies in the control data set. The statistically meaningful distance of eight pathological vertebral bodies in the study data set from the distribution of normal vertebral bodies in the parametric space shows that the parameters can be used to successfully model vertebral body deformations in 3D. The proposed method may therefore be used to assess vertebral body deformations in 3D or provide clinically meaningful observations that are not available when using 2D methods that are established in clinical practice.

  2. Multi-Modal Clique-Graph Matching for View-Based 3D Model Retrieval.

    PubMed

    Liu, An-An; Nie, Wei-Zhi; Gao, Yue; Su, Yu-Ting

    2016-05-01

    Multi-view matching is an important but a challenging task in view-based 3D model retrieval. To address this challenge, we propose an original multi-modal clique graph (MCG) matching method in this paper. We systematically present a method for MCG generation that is composed of cliques, which consist of neighbor nodes in multi-modal feature space and hyper-edges that link pairwise cliques. Moreover, we propose an image set-based clique/edgewise similarity measure to address the issue of the set-to-set distance measure, which is the core problem in MCG matching. The proposed MCG provides the following benefits: 1) preserves the local and global attributes of a graph with the designed structure; 2) eliminates redundant and noisy information by strengthening inliers while suppressing outliers; and 3) avoids the difficulty of defining high-order attributes and solving hyper-graph matching. We validate the MCG-based 3D model retrieval using three popular single-modal data sets and one novel multi-modal data set. Extensive experiments show the superiority of the proposed method through comparisons. Moreover, we contribute a novel real-world 3D object data set, the multi-view RGB-D object data set. To the best of our knowledge, it is the largest real-world 3D object data set containing multi-modal and multi-view information. PMID:26978821

  3. A model-based reconstruction method for 3-D rotational coronary angiography

    PubMed Central

    Xie, Lizhe; Hu, Yining; Nunes, Jean-Claude; Bellanger, Jean-Jacques; Bedossa, Marc; Luo, Limin; Toumoulin, Christine

    2010-01-01

    This paper presents a model-based reconstruction method of the coronary tree from a few number of projections in rotational angiography imaging. The reconstruction relies on projections acquired at a same cardiac phase and an energy function minimization that aims to lead the deformation of the 3D model to fit projection data whereas preserving coherence both in time and space. Some preliminary results are provided on simulated rotational angiograms. PMID:21096600

  4. Grammar-based Automatic 3D Model Reconstruction from Terrestrial Laser Scanning Data

    NASA Astrophysics Data System (ADS)

    Yu, Q.; Helmholz, P.; Belton, D.; West, G.

    2014-04-01

    The automatic reconstruction of 3D buildings has been an important research topic during the last years. In this paper, a novel method is proposed to automatically reconstruct the 3D building models from segmented data based on pre-defined formal grammar and rules. Such segmented data can be extracted e.g. from terrestrial or mobile laser scanning devices. Two steps are considered in detail. The first step is to transform the segmented data into 3D shapes, for instance using the DXF (Drawing Exchange Format) format which is a CAD data file format used for data interchange between AutoCAD and other program. Second, we develop a formal grammar to describe the building model structure and integrate the pre-defined grammars into the reconstruction process. Depending on the different segmented data, the selected grammar and rules are applied to drive the reconstruction process in an automatic manner. Compared with other existing approaches, our proposed method allows the model reconstruction directly from 3D shapes and takes the whole building into account.

  5. 3D model-based detection and tracking for space autonomous and uncooperative rendezvous

    NASA Astrophysics Data System (ADS)

    Shang, Yang; Zhang, Yueqiang; Liu, Haibo

    2015-10-01

    In order to fully navigate using a vision sensor, a 3D edge model based detection and tracking technique was developed. Firstly, we proposed a target detection strategy over a sequence of several images from the 3D model to initialize the tracking. The overall purpose of such approach is to robustly match each image with the model views of the target. Thus we designed a line segment detection and matching method based on the multi-scale space technology. Experiments on real images showed that our method is highly robust under various image changes. Secondly, we proposed a method based on 3D particle filter (PF) coupled with M-estimation to track and estimate the pose of the target efficiently. In the proposed approach, a similarity observation model was designed according to a new distance function of line segments. Then, based on the tracking results of PF, the pose was optimized using M-estimation. Experiments indicated that the proposed method can effectively track and accurately estimate the pose of freely moving target in unconstrained environment.

  6. Modeling late rectal toxicities based on a parameterized representation of the 3D dose distribution

    NASA Astrophysics Data System (ADS)

    Buettner, Florian; Gulliford, Sarah L.; Webb, Steve; Partridge, Mike

    2011-04-01

    Many models exist for predicting toxicities based on dose-volume histograms (DVHs) or dose-surface histograms (DSHs). This approach has several drawbacks as firstly the reduction of the dose distribution to a histogram results in the loss of spatial information and secondly the bins of the histograms are highly correlated with each other. Furthermore, some of the complex nonlinear models proposed in the past lack a direct physical interpretation and the ability to predict probabilities rather than binary outcomes. We propose a parameterized representation of the 3D distribution of the dose to the rectal wall which explicitly includes geometrical information in the form of the eccentricity of the dose distribution as well as its lateral and longitudinal extent. We use a nonlinear kernel-based probabilistic model to predict late rectal toxicity based on the parameterized dose distribution and assessed its predictive power using data from the MRC RT01 trial (ISCTRN 47772397). The endpoints under consideration were rectal bleeding, loose stools, and a global toxicity score. We extract simple rules identifying 3D dose patterns related to a specifically low risk of complication. Normal tissue complication probability (NTCP) models based on parameterized representations of geometrical and volumetric measures resulted in areas under the curve (AUCs) of 0.66, 0.63 and 0.67 for predicting rectal bleeding, loose stools and global toxicity, respectively. In comparison, NTCP models based on standard DVHs performed worse and resulted in AUCs of 0.59 for all three endpoints. In conclusion, we have presented low-dimensional, interpretable and nonlinear NTCP models based on the parameterized representation of the dose to the rectal wall. These models had a higher predictive power than models based on standard DVHs and their low dimensionality allowed for the identification of 3D dose patterns related to a low risk of complication.

  7. Hand Gesture Spotting Based on 3D Dynamic Features Using Hidden Markov Models

    NASA Astrophysics Data System (ADS)

    Elmezain, Mahmoud; Al-Hamadi, Ayoub; Michaelis, Bernd

    In this paper, we propose an automatic system that handles hand gesture spotting and recognition simultaneously in stereo color image sequences without any time delay based on Hidden Markov Models (HMMs). Color and 3D depth map are used to segment hand regions. The hand trajectory will determine in further step using Mean-shift algorithm and Kalman filter to generate 3D dynamic features. Furthermore, k-means clustering algorithm is employed for the HMMs codewords. To spot meaningful gestures accurately, a non-gesture model is proposed, which provides confidence limit for the calculated likelihood by other gesture models. The confidence measures are used as an adaptive threshold for spotting meaningful gestures. Experimental results show that the proposed system can successfully recognize isolated gestures with 98.33% and meaningful gestures with 94.35% reliability for numbers (0-9).

  8. MO-C-18A-01: Advances in Model-Based 3D Image Reconstruction

    SciTech Connect

    Chen, G; Pan, X; Stayman, J; Samei, E

    2014-06-15

    Recent years have seen the emergence of CT image reconstruction techniques that exploit physical models of the imaging system, photon statistics, and even the patient to achieve improved 3D image quality and/or reduction of radiation dose. With numerous advantages in comparison to conventional 3D filtered backprojection, such techniques bring a variety of challenges as well, including: a demanding computational load associated with sophisticated forward models and iterative optimization methods; nonlinearity and nonstationarity in image quality characteristics; a complex dependency on multiple free parameters; and the need to understand how best to incorporate prior information (including patient-specific prior images) within the reconstruction process. The advantages, however, are even greater – for example: improved image quality; reduced dose; robustness to noise and artifacts; task-specific reconstruction protocols; suitability to novel CT imaging platforms and noncircular orbits; and incorporation of known characteristics of the imager and patient that are conventionally discarded. This symposium features experts in 3D image reconstruction, image quality assessment, and the translation of such methods to emerging clinical applications. Dr. Chen will address novel methods for the incorporation of prior information in 3D and 4D CT reconstruction techniques. Dr. Pan will show recent advances in optimization-based reconstruction that enable potential reduction of dose and sampling requirements. Dr. Stayman will describe a “task-based imaging” approach that leverages models of the imaging system and patient in combination with a specification of the imaging task to optimize both the acquisition and reconstruction process. Dr. Samei will describe the development of methods for image quality assessment in such nonlinear reconstruction techniques and the use of these methods to characterize and optimize image quality and dose in a spectrum of clinical

  9. An efficient solid modeling system based on a hand-held 3D laser scan device

    NASA Astrophysics Data System (ADS)

    Xiong, Hanwei; Xu, Jun; Xu, Chenxi; Pan, Ming

    2014-12-01

    The hand-held 3D laser scanner sold in the market is appealing for its port and convenient to use, but price is expensive. To develop such a system based cheap devices using the same principles as the commercial systems is impossible. In this paper, a simple hand-held 3D laser scanner is developed based on a volume reconstruction method using cheap devices. Unlike convenient laser scanner to collect point cloud of an object surface, the proposed method only scan few key profile curves on the surface. Planar section curve network can be generated from these profile curves to construct a volume model of the object. The details of design are presented, and illustrated by the example of a complex shaped object.

  10. 3D MRI-based multicomponent FSI models for atherosclerotic plaques.

    PubMed

    Tang, Dalin; Yang, Chun; Zheng, Jie; Woodard, Pamela K; Sicard, Gregorio A; Saffitz, Jeffrey E; Yuan, Chun

    2004-07-01

    A three-dimensional (3D) MRI-based computational model with multicomponent plaque structure and fluid-structure interactions (FSI) is introduced to perform mechanical analysis for human atherosclerotic plaques and identify critical flow and stress/strain conditions which may be related to plaque rupture. Three-dimensional geometry of a human carotid plaque was reconstructed from 3D MR images and computational mesh was generated using Visualization Toolkit. Both the artery wall and the plaque components were assumed to be hyperelastic, isotropic, incompressible, and homogeneous. The flow was assumed to be laminar, Newtonian, viscous, and incompressible. The fully coupled fluid and structure models were solved by ADINA, a well-tested finite element package. Results from two-dimensional (2D) and 3D models, based on ex vivo MRI and histological images (HI), with different component sizes and plaque cap thickness, under different pressure and axial stretch conditions, were obtained and compared. Our results indicate that large lipid pools and thin plaque caps are associated with both extreme maximum (stretch) and minimum (compression when negative) stress/strain levels. Large cyclic stress/strain variations in the plaque under pulsating pressure were observed which may lead to artery fatigue and possible plaque rupture. Large-scale patient studies are needed to validate the computational findings for possible plaque vulnerability assessment and rupture predictions. PMID:15298432

  11. Full 3-D OCT-based pseudophakic custom computer eye model.

    PubMed

    Sun, M; Pérez-Merino, P; Martinez-Enriquez, E; Velasco-Ocana, M; Marcos, S

    2016-03-01

    We compared measured wave aberrations in pseudophakic eyes implanted with aspheric intraocular lenses (IOLs) with simulated aberrations from numerical ray tracing on customized computer eye models, built using quantitative 3-D OCT-based patient-specific ocular geometry. Experimental and simulated aberrations show high correlation (R = 0.93; p<0.0001) and similarity (RMS for high order aberrations discrepancies within 23.58%). This study shows that full OCT-based pseudophakic custom computer eye models allow understanding the relative contribution of optical geometrical and surgically-related factors to image quality, and are an excellent tool for characterizing and improving cataract surgery. PMID:27231608

  12. Full 3-D OCT-based pseudophakic custom computer eye model

    PubMed Central

    Sun, M.; Pérez-Merino, P.; Martinez-Enriquez, E.; Velasco-Ocana, M.; Marcos, S.

    2016-01-01

    We compared measured wave aberrations in pseudophakic eyes implanted with aspheric intraocular lenses (IOLs) with simulated aberrations from numerical ray tracing on customized computer eye models, built using quantitative 3-D OCT-based patient-specific ocular geometry. Experimental and simulated aberrations show high correlation (R = 0.93; p<0.0001) and similarity (RMS for high order aberrations discrepancies within 23.58%). This study shows that full OCT-based pseudophakic custom computer eye models allow understanding the relative contribution of optical geometrical and surgically-related factors to image quality, and are an excellent tool for characterizing and improving cataract surgery. PMID:27231608

  13. Model-based adaptive 3D sonar reconstruction in reverberating environments.

    PubMed

    Saucan, Augustin-Alexandru; Sintes, Christophe; Chonavel, Thierry; Caillec, Jean-Marc Le

    2015-10-01

    In this paper, we propose a novel model-based approach for 3D underwater scene reconstruction, i.e., bathymetry, for side scan sonar arrays in complex and highly reverberating environments like shallow water areas. The presence of multipath echoes and volume reverberation generates false depth estimates. To improve the resulting bathymetry, this paper proposes and develops an adaptive filter, based on several original geometrical models. This multimodel approach makes it possible to track and separate the direction of arrival trajectories of multiple echoes impinging the array. Echo tracking is perceived as a model-based processing stage, incorporating prior information on the temporal evolution of echoes in order to reject cluttered observations generated by interfering echoes. The results of the proposed filter on simulated and real sonar data showcase the clutter-free and regularized bathymetric reconstruction. Model validation is carried out with goodness of fit tests, and demonstrates the importance of model-based processing for bathymetry reconstruction.

  14. Obstacle avoidance using predictive vision based on a dynamic 3D world model

    NASA Astrophysics Data System (ADS)

    Benjamin, D. Paul; Lyons, Damian; Achtemichuk, Tom

    2006-10-01

    We have designed and implemented a fast predictive vision system for a mobile robot based on the principles of active vision. This vision system is part of a larger project to design a comprehensive cognitive architecture for mobile robotics. The vision system represents the robot's environment with a dynamic 3D world model based on a 3D gaming platform (Ogre3D). This world model contains a virtual copy of the robot and its environment, and outputs graphics showing what the virtual robot "sees" in the virtual world; this is what the real robot expects to see in the real world. The vision system compares this output in real time with the visual data. Any large discrepancies are flagged and sent to the robot's cognitive system, which constructs a plan for focusing on the discrepancies and resolving them, e.g. by updating the position of an object or by recognizing a new object. An object is recognized only once; thereafter its observed data are monitored for consistency with the predictions, greatly reducing the cost of scene understanding. We describe the implementation of this vision system and how the robot uses it to locate and avoid obstacles.

  15. Why 3D? The Need for Solution Based Modeling in a National Geoscience Organization.

    NASA Astrophysics Data System (ADS)

    Terrington, Ricky; Napier, Bruce; Howard, Andy; Ford, Jon; Hatton, William

    2008-05-01

    In recent years national geoscience organizations have increasingly utilized 3D model data as an output to the stakeholder community. Advances in both software and hardware have led to an increasing use of 3D depictions of geoscience data alongside the standard 2D data formats such as maps and GIS data. By characterizing geoscience data in 3D, knowledge transfer between geoscientists and stakeholders is improved as the mindset and thought processes are communicated more effectively in a 3D model than in a 2D flat file format. 3D models allow the user to understand the conceptual basis of the 2D data and aids the decision making process at local, regional and national scales. Some of these issues include foundation and engineering conditions, ground water vulnerability, aquifer recharge and flow, and resource extraction and storage. The British Geological Survey has established a mechanism and infrastructure through the Digital Geoscience Spatial Model Programme (DGSM) to produce these types of 3D geoscience outputs. This cyber-infrastructure not only allows good data and information management, it enables geoscientists to capture their know-how and implicit and tacit knowledge for their 3D interpretations. A user of this data will then have access to value-added information for the 3D dataset including the knowledge, approach, inferences, uncertainty, wider context and best practice acquired during the 3D interpretation. To complement this cyber-infrastructure, an immersive 3D Visualization Facility was constructed at the British Geological Survey offices in Keyworth, Nottingham and Edinburgh. These custom built facilities allow stereo projection of geoscience data, immersing the users and stakeholders in a wealth of 3D geological data. Successful uses of these facilities include collaborative 3D modeling, demonstrations to public stakeholders and Virtual Field Mapping Reconnaissance.

  16. Quality control of 3D Geological Models using an Attention Model based on Gaze

    NASA Astrophysics Data System (ADS)

    Busschers, Freek S.; van Maanen, Peter-Paul; Brouwer, Anne-Marie

    2014-05-01

    The Geological Survey of the Netherlands (GSN) produces 3D stochastic geological models of the upper 50 meters of the Dutch subsurface. The voxel models are regarded essential in answering subsurface questions on, for example, aggregate resources, groundwater flow, land subsidence studies and the planning of large-scale infrastructural works such as tunnels. GeoTOP is the most recent and detailed generation of 3D voxel models. This model describes 3D lithological variability up to a depth of 50 m using voxels of 100*100*0.5m. Due to the expected increase in data-flow, model output and user demands, the development of (semi-)automated quality control systems is getting more important in the near future. Besides numerical control systems, capturing model errors as seen from the expert geologist viewpoint is of increasing interest. We envision the use of eye gaze to support and speed up detection of errors in the geological voxel models. As a first step in this direction we explore gaze behavior of 12 geological experts from the GSN during quality control of part of the GeoTOP 3D geological model using an eye-tracker. Gaze is used as input of an attention model that results in 'attended areas' for each individual examined image of the GeoTOP model and each individual expert. We compared these attended areas to errors as marked by the experts using a mouse. Results show that: 1) attended areas as determined from experts' gaze data largely match with GeoTOP errors as indicated by the experts using a mouse, and 2) a substantial part of the match can be reached using only gaze data from the first few seconds of the time geologists spend to search for errors. These results open up the possibility of faster GeoTOP model control using gaze if geologists accept a small decrease of error detection accuracy. Attention data may also be used to make independent comparisons between different geologists varying in focus and expertise. This would facilitate a more effective use of

  17. Meta-Model Based Optimisation Algorithms for Robust Optimization of 3D Forging Sequences

    SciTech Connect

    Fourment, Lionel

    2007-04-07

    In order to handle costly and complex 3D metal forming optimization problems, we develop a new optimization algorithm that allows finding satisfactory solutions within less than 50 iterations (/function evaluation) in the presence of local extrema. It is based on the sequential approximation of the problem objective function by the Meshless Finite Difference Method (MFDM). This changing meta-model allows taking into account the gradient information, if available, or not. It can be easily extended to take into account uncertainties on the optimization parameters. This new algorithm is first evaluated on analytic functions, before being applied to a 3D forging benchmark, the preform tool shape optimization that allows minimizing the potential of fold formation during the two-stepped forging sequence.

  18. Services Oriented Smart City Platform Based On 3d City Model Visualization

    NASA Astrophysics Data System (ADS)

    Prandi, F.; Soave, M.; Devigili, F.; Andreolli, M.; De Amicis, R.

    2014-04-01

    The rapid technological evolution, which is characterizing all the disciplines involved within the wide concept of smart cities, is becoming a key factor to trigger true user-driven innovation. However to fully develop the Smart City concept to a wide geographical target, it is required an infrastructure that allows the integration of heterogeneous geographical information and sensor networks into a common technological ground. In this context 3D city models will play an increasingly important role in our daily lives and become an essential part of the modern city information infrastructure (Spatial Data Infrastructure). The work presented in this paper describes an innovative Services Oriented Architecture software platform aimed at providing smartcities services on top of 3D urban models. 3D city models are the basis of many applications and can became the platform for integrating city information within the Smart-Cites context. In particular the paper will investigate how the efficient visualisation of 3D city models using different levels of detail (LODs) is one of the pivotal technological challenge to support Smart-Cities applications. The goal is to provide to the final user realistic and abstract 3D representations of the urban environment and the possibility to interact with a massive amounts of semantic information contained into the geospatial 3D city model. The proposed solution, using OCG standards and a custom service to provide 3D city models, lets the users to consume the services and interact with the 3D model via Web in a more effective way.

  19. Image-driven, model-based 3D abdominal motion estimation for MR-guided radiotherapy

    NASA Astrophysics Data System (ADS)

    Stemkens, Bjorn; Tijssen, Rob H. N.; de Senneville, Baudouin Denis; Lagendijk, Jan J. W.; van den Berg, Cornelis A. T.

    2016-07-01

    Respiratory motion introduces substantial uncertainties in abdominal radiotherapy for which traditionally large margins are used. The MR-Linac will open up the opportunity to acquire high resolution MR images just prior to radiation and during treatment. However, volumetric MRI time series are not able to characterize 3D tumor and organ-at-risk motion with sufficient temporal resolution. In this study we propose a method to estimate 3D deformation vector fields (DVFs) with high spatial and temporal resolution based on fast 2D imaging and a subject-specific motion model based on respiratory correlated MRI. In a pre-beam phase, a retrospectively sorted 4D-MRI is acquired, from which the motion is parameterized using a principal component analysis. This motion model is used in combination with fast 2D cine-MR images, which are acquired during radiation, to generate full field-of-view 3D DVFs with a temporal resolution of 476 ms. The geometrical accuracies of the input data (4D-MRI and 2D multi-slice acquisitions) and the fitting procedure were determined using an MR-compatible motion phantom and found to be 1.0-1.5 mm on average. The framework was tested on seven healthy volunteers for both the pancreas and the kidney. The calculated motion was independently validated using one of the 2D slices, with an average error of 1.45 mm. The calculated 3D DVFs can be used retrospectively for treatment simulations, plan evaluations, or to determine the accumulated dose for both the tumor and organs-at-risk on a subject-specific basis in MR-guided radiotherapy.

  20. Model based assessment of vestibular jawbone thickness using high frequency 3D ultrasound micro-scanning

    NASA Astrophysics Data System (ADS)

    Habor, Daniel; Neuhaus, Sarah; Vollborn, Thorsten; Wolfart, Stefan; Radermacher, Klaus; Heger, Stefan

    2013-03-01

    Endosseous implants are well-established in modern dentistry. However, without appropriate therapeutic intervention, progressive peri-implant bone loss may lead to failing implants. Conventionally, the particularly relevant vestibular jawbone thickness is monitored using radiographic 3D imaging methods. Ionizing radiation, as well as imaging artifacts caused by metallic implants and superstructures are major drawbacks of these imaging modalities. In this study, a high frequency ultrasound (HFUS) based approach to assess the vestibular jawbone thickness is being introduced. It should be emphasized that the presented method does not require ultrasound penetration of the jawbone. An in-vitro study using two porcine specimens with inserted endosseous implants has been carried out to assess the accuracy of our approach. The implant of the first specimen was equipped with a gingiva former while a polymer superstructure was mounted onto the implant of the second specimen. Ultrasound data has been acquired using a 4 degree of freedom (DOF) high frequency (<50MHz) laboratory ultrasound scanner. The ultrasound raw data has been converted to polygon meshes including the surfaces of bone, gingiva, gingiva former (first specimen) and superstructure (second specimen). The meshes are matched with a-priori acquired 3D models of the implant, the superstructure and the gingiva former using a best-fit algorithm. Finally, the vestibular peri-implant bone thickness has been assessed in the resulting 3D models. The accuracy of this approach has been evaluated by comparing the ultrasound based thickness measurement with a reference measurement acquired with an optical extra-oral 3D scanner prior to covering the specimens with gingiva. As a final result, the bone thicknesses of the two specimens were measured yielding an error of -46+/-89μm (first specimen) and 70+/-93μm (second specimen).

  1. Image-driven, model-based 3D abdominal motion estimation for MR-guided radiotherapy

    NASA Astrophysics Data System (ADS)

    Stemkens, Bjorn; Tijssen, Rob H. N.; de Senneville, Baudouin Denis; Lagendijk, Jan J. W.; van den Berg, Cornelis A. T.

    2016-07-01

    Respiratory motion introduces substantial uncertainties in abdominal radiotherapy for which traditionally large margins are used. The MR-Linac will open up the opportunity to acquire high resolution MR images just prior to radiation and during treatment. However, volumetric MRI time series are not able to characterize 3D tumor and organ-at-risk motion with sufficient temporal resolution. In this study we propose a method to estimate 3D deformation vector fields (DVFs) with high spatial and temporal resolution based on fast 2D imaging and a subject-specific motion model based on respiratory correlated MRI. In a pre-beam phase, a retrospectively sorted 4D-MRI is acquired, from which the motion is parameterized using a principal component analysis. This motion model is used in combination with fast 2D cine-MR images, which are acquired during radiation, to generate full field-of-view 3D DVFs with a temporal resolution of 476 ms. The geometrical accuracies of the input data (4D-MRI and 2D multi-slice acquisitions) and the fitting procedure were determined using an MR-compatible motion phantom and found to be 1.0–1.5 mm on average. The framework was tested on seven healthy volunteers for both the pancreas and the kidney. The calculated motion was independently validated using one of the 2D slices, with an average error of 1.45 mm. The calculated 3D DVFs can be used retrospectively for treatment simulations, plan evaluations, or to determine the accumulated dose for both the tumor and organs-at-risk on a subject-specific basis in MR-guided radiotherapy.

  2. Image-driven, model-based 3D abdominal motion estimation for MR-guided radiotherapy.

    PubMed

    Stemkens, Bjorn; Tijssen, Rob H N; de Senneville, Baudouin Denis; Lagendijk, Jan J W; van den Berg, Cornelis A T

    2016-07-21

    Respiratory motion introduces substantial uncertainties in abdominal radiotherapy for which traditionally large margins are used. The MR-Linac will open up the opportunity to acquire high resolution MR images just prior to radiation and during treatment. However, volumetric MRI time series are not able to characterize 3D tumor and organ-at-risk motion with sufficient temporal resolution. In this study we propose a method to estimate 3D deformation vector fields (DVFs) with high spatial and temporal resolution based on fast 2D imaging and a subject-specific motion model based on respiratory correlated MRI. In a pre-beam phase, a retrospectively sorted 4D-MRI is acquired, from which the motion is parameterized using a principal component analysis. This motion model is used in combination with fast 2D cine-MR images, which are acquired during radiation, to generate full field-of-view 3D DVFs with a temporal resolution of 476 ms. The geometrical accuracies of the input data (4D-MRI and 2D multi-slice acquisitions) and the fitting procedure were determined using an MR-compatible motion phantom and found to be 1.0-1.5 mm on average. The framework was tested on seven healthy volunteers for both the pancreas and the kidney. The calculated motion was independently validated using one of the 2D slices, with an average error of 1.45 mm. The calculated 3D DVFs can be used retrospectively for treatment simulations, plan evaluations, or to determine the accumulated dose for both the tumor and organs-at-risk on a subject-specific basis in MR-guided radiotherapy.

  3. The feasibility of photo-based 3D modeling for the structures by using a common digital camera

    NASA Astrophysics Data System (ADS)

    Li, Ping; Zhang, Jin-quan; Li, Wan-heng; Lv, Jian-ming; Wang, Xin-zheng

    2011-12-01

    This article explored the method of photo-based 3D modeling for the arc bridge structures by ordinary digital camera. Firstly, a series of processes had been studied by using ordinary digital camera that included the camera calibration, data acquisition, data management, and 3D orientation, setting scale and textures, etc., then the 3D model from photos can be built. The model can be measured, edited and close to the real structures. Take an interior masonry arch bridge as an example, build 3D model through the processes above by using camera HP CB350. The 3D model can be integrated with the loading conditions and material properties, to provide the detailed data for analyzing the structure. This paper has accumulated the experience in data acquisition and modeling methods. The methods can be applied to other structural analysis, and other conditions of 3D modeling with fast and economic advantages.

  4. Distributed haptic interactions with physically based 3D deformable models over lossy networks.

    PubMed

    Tang, Ziying; Yang, Yin; Guo, Xiaohu; Prabhakaran, Balakrishnan

    2013-01-01

    Researchers have faced great challenges when simulating complicated 3D volumetric deformable models in haptics-enabled collaborative/cooperative virtual environments (HCVEs) due to the expensive simulation cost, heavy communication load, and unstable network conditions. When general network services are applied to HCVEs, network problems such as packet loss, delay, and jitter can cause severe visual distortion, haptic instability, and system inconsistency. In this paper, we propose a novel approach to support haptic interactions with physically based 3D deformable models in a distributed virtual environment. Our objective is to achieve real-time sharing of deformable and force simulations over general networks. Combining linear modal analysis and corotational methods, we can effectively simulate physical behaviors of 3D objects, even for large rotational deformations. We analyze different factors that influence HCVEs' performance and focus on exploring solutions for streaming over lossy networks. In our system, 3D deformation can be described by a fairly small amount of data (several KB) using accelerations in the spectral domain, so that we can achieve low communication load and effective streaming. We develop a loss compensation and prediction algorithm to correct the errors/distortions caused by network problem, and a force prediction method to simulate force at users' side to ensure the haptic stability, and the visual and haptic consistency. Our system works well under both the client-server and the peer-to-peer distribution structures, and can be easily extended to other topologies. In addition to theoretical analysis, we have tested the proposed system and algorithms under various network conditions. The experimental results are remarkably good, confirming the effectiveness, robustness, and validity of our approach. PMID:24808394

  5. Reconstructing 3D CAD models for simulation using imaging-based reverse engineering

    NASA Astrophysics Data System (ADS)

    Voisin, Sophie; Page, David; Koschan, Andreas; Abidi, Mongi

    2006-05-01

    The purpose of this research is to investigate imaging-based methods to reconstruct 3D CAD models of real-world objects. The methodology uses structured lighting technologies such as coded-pattern projection and laser-based triangulation to sample 3D points on the surfaces of objects and then to reconstruct these surfaces from the dense point samples. This reverse engineering (RE) research presents reconstruction results for a military tire that is important to tire-soil simulations. The limitations of this approach are the current level of accuracy that imaging-based systems offer relative to more traditional CMM modeling systems. The benefit however is the potential for denser point samples and increased scanning speeds of objects, and with time, the imaging technologies should continue to improve to compete with CMM accuracy. This approach to RE should lead to high fidelity models of manufactured and prototyped components for comparison to the original CAD models and for simulation analysis. We focus this paper on the data collection and view registration problems within the RE pipeline.

  6. 3D delivered dose assessment using a 4DCT-based motion model

    SciTech Connect

    Cai, Weixing; Hurwitz, Martina H.; Williams, Christopher L.; Dhou, Salam; Berbeco, Ross I.; Mishra, Pankaj E-mail: jhlewis@lroc.harvard.edu; Lewis, John H. E-mail: jhlewis@lroc.harvard.edu; Seco, Joao

    2015-06-15

    Purpose: The purpose of this work is to develop a clinically feasible method of calculating actual delivered dose distributions for patients who have significant respiratory motion during the course of stereotactic body radiation therapy (SBRT). Methods: A novel approach was proposed to calculate the actual delivered dose distribution for SBRT lung treatment. This approach can be specified in three steps. (1) At the treatment planning stage, a patient-specific motion model is created from planning 4DCT data. This model assumes that the displacement vector field (DVF) of any respiratory motion deformation can be described as a linear combination of some basis DVFs. (2) During the treatment procedure, 2D time-varying projection images (either kV or MV projections) are acquired, from which time-varying “fluoroscopic” 3D images of the patient are reconstructed using the motion model. The DVF of each timepoint in the time-varying reconstruction is an optimized linear combination of basis DVFs such that the 2D projection of the 3D volume at this timepoint matches the projection image. (3) 3D dose distribution is computed for each timepoint in the set of 3D reconstructed fluoroscopic images, from which the total effective 3D delivered dose is calculated by accumulating deformed dose distributions. This approach was first validated using two modified digital extended cardio-torso (XCAT) phantoms with lung tumors and different respiratory motions. The estimated doses were compared to the dose that would be calculated for routine 4DCT-based planning and to the actual delivered dose that was calculated using “ground truth” XCAT phantoms at all timepoints. The approach was also tested using one set of patient data, which demonstrated the application of our method in a clinical scenario. Results: For the first XCAT phantom that has a mostly regular breathing pattern, the errors in 95% volume dose (D95) are 0.11% and 0.83%, respectively for 3D fluoroscopic images

  7. 3D delivered dose assessment using a 4DCT-based motion model

    PubMed Central

    Cai, Weixing; Hurwitz, Martina H.; Williams, Christopher L.; Dhou, Salam; Berbeco, Ross I.; Seco, Joao; Mishra, Pankaj; Lewis, John H.

    2015-01-01

    Purpose: The purpose of this work is to develop a clinically feasible method of calculating actual delivered dose distributions for patients who have significant respiratory motion during the course of stereotactic body radiation therapy (SBRT). Methods: A novel approach was proposed to calculate the actual delivered dose distribution for SBRT lung treatment. This approach can be specified in three steps. (1) At the treatment planning stage, a patient-specific motion model is created from planning 4DCT data. This model assumes that the displacement vector field (DVF) of any respiratory motion deformation can be described as a linear combination of some basis DVFs. (2) During the treatment procedure, 2D time-varying projection images (either kV or MV projections) are acquired, from which time-varying “fluoroscopic” 3D images of the patient are reconstructed using the motion model. The DVF of each timepoint in the time-varying reconstruction is an optimized linear combination of basis DVFs such that the 2D projection of the 3D volume at this timepoint matches the projection image. (3) 3D dose distribution is computed for each timepoint in the set of 3D reconstructed fluoroscopic images, from which the total effective 3D delivered dose is calculated by accumulating deformed dose distributions. This approach was first validated using two modified digital extended cardio-torso (XCAT) phantoms with lung tumors and different respiratory motions. The estimated doses were compared to the dose that would be calculated for routine 4DCT-based planning and to the actual delivered dose that was calculated using “ground truth” XCAT phantoms at all timepoints. The approach was also tested using one set of patient data, which demonstrated the application of our method in a clinical scenario. Results: For the first XCAT phantom that has a mostly regular breathing pattern, the errors in 95% volume dose (D95) are 0.11% and 0.83%, respectively for 3D fluoroscopic images

  8. Web Based Interactive Anaglyph Stereo Visualization of 3D Model of Geoscience Data

    NASA Astrophysics Data System (ADS)

    Han, J.

    2014-12-01

    The objectives of this study were to create interactive online tool for generating and viewing the anaglyph 3D stereo image on a Web browser via Internet. To achieve this, we designed and developed the prototype system. Three-dimensional visualization is well known and becoming popular in recent years to understand the target object and the related physical phenomena. Geoscience data have the complex data model, which combines large extents with rich small scale visual details. So, the real-time visualization of 3D geoscience data model on the Internet is a challenging work. In this paper, we show the result of creating which can be viewed in 3D anaglyph of geoscience data in any web browser which supports WebGL. We developed an anaglyph image viewing prototype system, and some representative results are displayed by anaglyph 3D stereo image generated in red-cyan colour from pairs of air-photo/digital elevation model and geological map/digital elevation model respectively. The best viewing is achieved by using suitable 3D red-cyan glasses, although alternatively red-blue or red-green spectacles can be also used. The middle mouse wheel can be used to zoom in/out the anaglyph image on a Web browser. Application of anaglyph 3D stereo image is a very important and easy way to understand the underground geologic system and active tectonic geomorphology. The integrated strata with fine three-dimensional topography and geologic map data can help to characterise the mineral potential area and the active tectonic abnormal characteristics. To conclude, it can be stated that anaglyph 3D stereo image provides a simple and feasible method to improve the relief effect of geoscience data such as geomorphology and geology. We believe that with further development, the anaglyph 3D stereo imaging system could as a complement to 3D geologic modeling, constitute a useful tool for better understanding of the underground geology and the active tectonic

  9. Vulnerability mapping of groundwater contamination based on 3D lithostratigraphical models of porous aquifers.

    PubMed

    Ducci, Daniela; Sellerino, Mariangela

    2013-03-01

    The aim of this paper is to apply a methodology in order to reconstruct a lithostratigraphic 3D model of an aquifer so as to define some parameters involved in the evaluation of the aquifer vulnerability to contamination of porous aquifers. The DRASTIC, SINTACS and AVI methods have been applied to an alluvial coastal aquifer of southern Italy. The stratigraphic reconstruction has been obtained by interpolating stratigraphic data from more than one borehole per 2 km. The lithostratigraphic reconstruction of a 3D model has been applied and used for three-dimensional or two-dimensional representations. In the first two methods, the layers of the vadose zone and the aquifer media have been evaluated not only by the interpolation of the single boreholes and piezometers, but also by the 3D model, assigning the scores of the parameters of each layer of the 3D model. The comparison between the maps constructed from the weighted values in each borehole and the maps deriving from the attribution of the values of each layer of the 3D model, highlights that the second representation avoids or minimizes the "bullseye" effect linked to the presence of boreholes with higher or lower values. The study has demonstrated that it is possible to integrate a 3D lithostratigraphic model of an aquifer in the assessment of the parameters involved in the evaluation of the aquifer vulnerability to contamination by Point Count System methods.

  10. Integrating 3D geological information with a national physically-based hydrological modelling system

    NASA Astrophysics Data System (ADS)

    Lewis, Elizabeth; Parkin, Geoff; Kessler, Holger; Whiteman, Mark

    2016-04-01

    Robust numerical models are an essential tool for informing flood and water management and policy around the world. Physically-based hydrological models have traditionally not been used for such applications due to prohibitively large data, time and computational resource requirements. Given recent advances in computing power and data availability, a robust, physically-based hydrological modelling system for Great Britain using the SHETRAN model and national datasets has been created. Such a model has several advantages over less complex systems. Firstly, compared with conceptual models, a national physically-based model is more readily applicable to ungauged catchments, in which hydrological predictions are also required. Secondly, the results of a physically-based system may be more robust under changing conditions such as climate and land cover, as physical processes and relationships are explicitly accounted for. Finally, a fully integrated surface and subsurface model such as SHETRAN offers a wider range of applications compared with simpler schemes, such as assessments of groundwater resources, sediment and nutrient transport and flooding from multiple sources. As such, SHETRAN provides a robust means of simulating numerous terrestrial system processes which will add physical realism when coupled to the JULES land surface model. 306 catchments spanning Great Britain have been modelled using this system. The standard configuration of this system performs satisfactorily (NSE > 0.5) for 72% of catchments and well (NSE > 0.7) for 48%. Many of the remaining 28% of catchments that performed relatively poorly (NSE < 0.5) are located in the chalk in the south east of England. As such, the British Geological Survey 3D geology model for Great Britain (GB3D) has been incorporated, for the first time in any hydrological model, to pave the way for improvements to be made to simulations of catchments with important groundwater regimes. This coupling has involved

  11. MRI-based aortic blood flow model in 3D ballistocardiography.

    PubMed

    Lejeune, L; Prisk, G K; Nonclercq, A; Migeotte, P-F

    2015-01-01

    Ballistocardiography (BCG) is a non-invasive technique which measures the acceleration of a body induced by cardiovascular activity, namely the force exerted by the beating heart. A one dimensional aortic flow model based on the transmission lines theory is developped and applied to the simulation of three dimensional BCG. A four-element Windkessel model is used to generate the pressure-wave. Using transverse MRI slices of a human subject, a reconstruction of the aorta allows the extraction of parameters used to relate the local change in mass of the 1D flow model to 3D acceleration BCG. Simulated BCG curves are then compared qualitatively with the ensemble average curves of the same subject recorded in sustained microgravity. Confirming previous studies, the main features of the y-axis are well simulated. The simulated z-axis, never attempted before, shows important similarities. The simulated x-axis is less faithful and suggests the presence of reflections. PMID:26737946

  12. 3D modeling method for computer animate based on modified weak structured light method

    NASA Astrophysics Data System (ADS)

    Xiong, Hanwei; Pan, Ming; Zhang, Xiangwei

    2010-11-01

    A simple and affordable 3D scanner is designed in this paper. Three-dimensional digital models are playing an increasingly important role in many fields, such as computer animate, industrial design, artistic design and heritage conservation. For many complex shapes, optical measurement systems are indispensable to acquiring the 3D information. In the field of computer animate, such an optical measurement device is too expensive to be widely adopted, and on the other hand, the precision is not as critical a factor in that situation. In this paper, a new cheap 3D measurement system is implemented based on modified weak structured light, using only a video camera, a light source and a straight stick rotating on a fixed axis. For an ordinary weak structured light configuration, one or two reference planes are required, and the shadows on these planes must be tracked in the scanning process, which destroy the convenience of this method. In the modified system, reference planes are unnecessary, and size range of the scanned objects is expanded widely. A new calibration procedure is also realized for the proposed method, and points cloud is obtained by analyzing the shadow strips on the object. A two-stage ICP algorithm is used to merge the points cloud from different viewpoints to get a full description of the object, and after a series of operations, a NURBS surface model is generated in the end. A complex toy bear is used to verify the efficiency of the method, and errors range from 0.7783mm to 1.4326mm comparing with the ground truth measurement.

  13. Statistical Inverse Ray Tracing for Image-Based 3D Modeling.

    PubMed

    Liu, Shubao; Cooper, David B

    2014-10-01

    This paper proposes a new formulation and solution to image-based 3D modeling (aka "multi-view stereo") based on generative statistical modeling and inference. The proposed new approach, named statistical inverse ray tracing, models and estimates the occlusion relationship accurately through optimizing a physically sound image generation model based on volumetric ray tracing. Together with geometric priors, they are put together into a Bayesian formulation known as Markov random field (MRF) model. This MRF model is different from typical MRFs used in image analysis in the sense that the ray clique, which models the ray-tracing process, consists of thousands of random variables instead of two to dozens. To handle the computational challenges associated with large clique size, an algorithm with linear computational complexity is developed by exploiting, using dynamic programming, the recursive chain structure of the ray clique. We further demonstrate the benefit of exact modeling and accurate estimation of the occlusion relationship by evaluating the proposed algorithm on several challenging data sets.

  14. Quantitative fully 3D PET via model-based scatter correction

    SciTech Connect

    Ollinger, J.M.

    1994-05-01

    We have investigated the quantitative accuracy of fully 3D PET using model-based scatter correction by measuring the half-life of Ga-68 in the presence of scatter from F-18. The inner chamber of a Data Spectrum cardiac phantom was filled with 18.5 MBq of Ga-68. The outer chamber was filled with an equivalent amount of F-18. The cardiac phantom was placed in a 22x30.5 cm elliptical phantom containing anthropomorphic lung inserts filled with a water-Styrofoam mixture. Ten frames of dynamic data were collected over 13.6 hours on Siemens-CTI 953B scanner with the septa retracted. The data were corrected using model-based scatter correction, which uses the emission images, transmission images and an accurate physical model to directly calculate the scatter distribution. Both uncorrected and corrected data were reconstructed using the Promis algorithm. The scatter correction required 4.3% of the total reconstruction time. The scatter fraction in a small volume of interest in the center of the inner chamber of the cardiac insert rose from 4.0% in the first interval to 46.4% in the last interval as the ratio of F-18 activity to Ga-68 activity rose from 1:1 to 33:1. Fitting a single exponential to the last three data points yields estimates of the half-life of Ga-68 of 77.01 minutes and 68.79 minutes for uncorrected and corrected data respectively. Thus, scatter correction reduces the error from 13.3% to 1.2%. This suggests that model-based scatter correction is accurate in the heterogeneous attenuating medium found in the chest, making possible quantitative, fully 3D PET in the body.

  15. 3D CAD model retrieval method based on hierarchical multi-features

    NASA Astrophysics Data System (ADS)

    An, Ran; Wang, Qingwen

    2015-12-01

    The classical "Shape Distribution D2" algorithm takes the distance between two random points on a surface of CAD model as statistical features, and based on that it generates a feature vector to calculate the dissimilarity and achieve the retrieval goal. This algorithm has a simple principle, high computational efficiency and can get a better retrieval results for the simple shape models. Based on the analysis of D2 algorithm's shape distribution curve, this paper enhances the algorithm's descriptive ability for a model's overall shape through the statistics of the angle between two random points' normal vectors, especially for the distinctions between the model's plane features and curved surface features; meanwhile, introduce the ratio that a line between two random points cut off by the model's surface to enhance the algorithm's descriptive ability for a model's detailed features; finally, integrating the two shape describing methods with the original D2 algorithm, this paper proposes a new method based the hierarchical multi-features. Experimental results showed that this method has bigger improvements and could get a better retrieval results compared with the traditional 3D CAD model retrieval method.

  16. Making Inexpensive 3-D Models

    ERIC Educational Resources Information Center

    Manos, Harry

    2016-01-01

    Visual aids are important to student learning, and they help make the teacher's job easier. Keeping with the "TPT" theme of "The Art, Craft, and Science of Physics Teaching," the purpose of this article is to show how teachers, lacking equipment and funds, can construct a durable 3-D model reference frame and a model gravity…

  17. Segmentation of vertebral bodies in CT and MR images based on 3D deterministic models

    NASA Astrophysics Data System (ADS)

    Štern, Darko; Vrtovec, Tomaž; Pernuš, Franjo; Likar, Boštjan

    2011-03-01

    The evaluation of vertebral deformations is of great importance in clinical diagnostics and therapy of pathological conditions affecting the spine. Although modern clinical practice is oriented towards the computed tomography (CT) and magnetic resonance (MR) imaging techniques, as they can provide a detailed 3D representation of vertebrae, the established methods for the evaluation of vertebral deformations still provide only a two-dimensional (2D) geometrical description. Segmentation of vertebrae in 3D may therefore not only improve their visualization, but also provide reliable and accurate 3D measurements of vertebral deformations. In this paper we propose a method for 3D segmentation of individual vertebral bodies that can be performed in CT and MR images. Initialized with a single point inside the vertebral body, the segmentation is performed by optimizing the parameters of a 3D deterministic model of the vertebral body to achieve the best match of the model to the vertebral body in the image. The performance of the proposed method was evaluated on five CT (40 vertebrae) and five T2-weighted MR (40 vertebrae) spine images, among them five are normal and five are pathological. The results show that the proposed method can be used for 3D segmentation of vertebral bodies in CT and MR images and that the proposed model can describe a variety of vertebral body shapes. The method may be therefore used for initializing whole vertebra segmentation or reliably describing vertebral body deformations.

  18. Neurally and ocularly informed graph-based models for searching 3D environments

    NASA Astrophysics Data System (ADS)

    Jangraw, David C.; Wang, Jun; Lance, Brent J.; Chang, Shih-Fu; Sajda, Paul

    2014-08-01

    Objective. As we move through an environment, we are constantly making assessments, judgments and decisions about the things we encounter. Some are acted upon immediately, but many more become mental notes or fleeting impressions—our implicit ‘labeling’ of the world. In this paper, we use physiological correlates of this labeling to construct a hybrid brain-computer interface (hBCI) system for efficient navigation of a 3D environment. Approach. First, we record electroencephalographic (EEG), saccadic and pupillary data from subjects as they move through a small part of a 3D virtual city under free-viewing conditions. Using machine learning, we integrate the neural and ocular signals evoked by the objects they encounter to infer which ones are of subjective interest to them. These inferred labels are propagated through a large computer vision graph of objects in the city, using semi-supervised learning to identify other, unseen objects that are visually similar to the labeled ones. Finally, the system plots an efficient route to help the subjects visit the ‘similar’ objects it identifies. Main results. We show that by exploiting the subjects’ implicit labeling to find objects of interest instead of exploring naively, the median search precision is increased from 25% to 97%, and the median subject need only travel 40% of the distance to see 84% of the objects of interest. We also find that the neural and ocular signals contribute in a complementary fashion to the classifiers’ inference of subjects’ implicit labeling. Significance. In summary, we show that neural and ocular signals reflecting subjective assessment of objects in a 3D environment can be used to inform a graph-based learning model of that environment, resulting in an hBCI system that improves navigation and information delivery specific to the user’s interests.

  19. A Little Knowledge of Ground Motion: Explaining 3-D Physics-Based Modeling to Engineers

    NASA Astrophysics Data System (ADS)

    Porter, K.

    2014-12-01

    Users of earthquake planning scenarios require the ground-motion map to be credible enough to justify costly planning efforts, but not all ground-motion maps are right for all uses. There are two common ways to create a map of ground motion for a hypothetical earthquake. One approach is to map the median shaking estimated by empirical attenuation relationships. The other uses 3-D physics-based modeling, in which one analyzes a mathematical model of the earth's crust near the fault rupture and calculates the generation and propagation of seismic waves from source to ground surface by first principles. The two approaches produce different-looking maps. The more-familiar median maps smooth out variability and correlation. Using them in a planning scenario can lead to a systematic underestimation of damage and loss, and could leave a community underprepared for realistic shaking. The 3-D maps show variability, including some very high values that can disconcert non-scientists. So when the USGS Science Application for Risk Reduction's (SAFRR) Haywired scenario project selected 3-D maps, it was necessary to explain to scenario users—especially engineers who often use median maps—the differences, advantages, and disadvantages of the two approaches. We used authority, empirical evidence, and theory to support our choice. We prefaced our explanation with SAFRR's policy of using the best available earth science, and cited the credentials of the maps' developers and the reputation of the journal in which they published the maps. We cited recorded examples from past earthquakes of extreme ground motions that are like those in the scenario map. We explained the maps on theoretical grounds as well, explaining well established causes of variability: directivity, basin effects, and source parameters. The largest mapped motions relate to potentially unfamiliar extreme-value theory, so we used analogies to human longevity and the average age of the oldest person in samples of

  20. 3D Modelling of Inaccessible Areas using UAV-based Aerial Photography and Structure from Motion

    NASA Astrophysics Data System (ADS)

    Obanawa, Hiroyuki; Hayakawa, Yuichi; Gomez, Christopher

    2014-05-01

    In hardly accessible areas, the collection of 3D point-clouds using TLS (Terrestrial Laser Scanner) can be very challenging, while airborne equivalent would not give a correct account of subvertical features and concave geometries like caves. To solve such problem, the authors have experimented an aerial photography based SfM (Structure from Motion) technique on a 'peninsular-rock' surrounded on three sides by the sea at a Pacific coast in eastern Japan. The research was carried out using UAS (Unmanned Aerial System) combined with a commercial small UAV (Unmanned Aerial Vehicle) carrying a compact camera. The UAV is a DJI PHANTOM: the UAV has four rotors (quadcopter), it has a weight of 1000 g, a payload of 400 g and a maximum flight time of 15 minutes. The camera is a GoPro 'HERO3 Black Edition': resolution 12 million pixels; weight 74 g; and 0.5 sec. interval-shot. The 3D model has been constructed by digital photogrammetry using a commercial SfM software, Agisoft PhotoScan Professional®, which can generate sparse and dense point-clouds, from which polygonal models and orthophotographs can be calculated. Using the 'flight-log' and/or GCPs (Ground Control Points), the software can generate digital surface model. As a result, high-resolution aerial orthophotographs and a 3D model were obtained. The results have shown that it was possible to survey the sea cliff and the wave cut-bench, which are unobservable from land side. In details, we could observe the complexity of the sea cliff that is nearly vertical as a whole while slightly overhanging over the thinner base. The wave cut bench is nearly flat and develops extensively at the base of the cliff. Although there are some evidences of small rockfalls at the upper part of the cliff, there is no evidence of very recent activity, because no fallen rock exists on the wave cut bench. This system has several merits: firstly lower cost than the existing measuring methods such as manned-flight survey and aerial laser

  1. Engineered 3D Silk-collagen-based Model of Polarized Neural Tissue

    PubMed Central

    Chwalek, Karolina; Sood, Disha; Cantley, William L.; White, James D.; Tang-Schomer, Min; Kaplan, David L.

    2015-01-01

    Despite huge efforts to decipher the anatomy, composition and function of the brain, it remains the least understood organ of the human body. To gain a deeper comprehension of the neural system scientists aim to simplistically reconstruct the tissue by assembling it in vitro from basic building blocks using a tissue engineering approach. Our group developed a tissue-engineered silk and collagen-based 3D brain-like model resembling the white and gray matter of the cortex. The model consists of silk porous sponge, which is pre-seeded with rat brain-derived neurons, immersed in soft collagen matrix. Polarized neuronal outgrowth and network formation is observed with separate axonal and cell body localization. This compartmental architecture allows for the unique development of niches mimicking native neural tissue, thus enabling research on neuronal network assembly, axonal guidance, cell-cell and cell-matrix interactions and electrical functions. PMID:26555926

  2. Data Management Framework of Drone-Based 3d Model Reconstruction of Disaster Site

    NASA Astrophysics Data System (ADS)

    Kim, C.; Moon, H.; Lee, W.

    2016-06-01

    To rescue peoples in the disaster site in time, information acquisition of current feature of collapsed buildings and terrain is quite important for disaster site rescue manager. Based on information about disaster site, they can accurately plan the rescue process and remove collapsed buildings or other facilities. However, due to the harsh condition of disaster areas, rapid and accurate acquisition of disaster site information is not an easy task. There are possibilities of further damages in the collapse and there are also difficulties in acquiring information about current disaster situation due to large disaster site and limited rescue resources. To overcome these circumstances of disaster sites, an unmanned aerial vehicle, commonly known as a drone is used to rapidly and effectively acquire current image data of the large disaster areas. Then, the procedure of drone-based 3D model reconstruction visualization function of developed system is presented.

  3. Shape-model-based adaptation of 3D deformable meshes for segmentation of medical images

    NASA Astrophysics Data System (ADS)

    Pekar, Vladimir; Kaus, Michael R.; Lorenz, Cristian; Lobregt, Steven; Truyen, Roel; Weese, Juergen

    2001-07-01

    Segmentation methods based on adaptation of deformable models have found numerous applications in medical image analysis. Many efforts have been made in the recent years to improve their robustness and reliability. In particular, increasingly more methods use a priori information about the shape of the anatomical structure to be segmented. This reduces the risk of the model being attracted to false features in the image and, as a consequence, makes the need of close initialization, which remains the principal limitation of elastically deformable models, less crucial for the segmentation quality. In this paper, we present a novel segmentation approach which uses a 3D anatomical statistical shape model to initialize the adaptation process of a deformable model represented by a triangular mesh. As the first step, the anatomical shape model is parametrically fitted to the structure of interest in the image. The result of this global adaptation is used to initialize the local mesh refinement based on an energy minimization. We applied our approach to segment spine vertebrae in CT datasets. The segmentation quality was quantitatively assessed for 6 vertebrae, from 2 datasets, by computing the mean and maximum distance between the adapted mesh and a manually segmented reference shape. The results of the study show that the presented method is a promising approach for segmentation of complex anatomical structures in medical images.

  4. Insertion of 3-D-primitives in mesh-based representations: towards compact models preserving the details.

    PubMed

    Lafarge, Florent; Keriven, Renaud; Brédif, Mathieu

    2010-07-01

    We propose an original hybrid modeling process of urban scenes that represents 3-D models as a combination of mesh-based surfaces and geometric 3-D-primitives. Meshes describe details such as ornaments and statues, whereas 3-D-primitives code for regular shapes such as walls and columns. Starting from an 3-D-surface obtained by multiview stereo techniques, these primitives are inserted into the surface after being detected. This strategy allows the introduction of semantic knowledge, the simplification of the modeling, and even correction of errors generated by the acquisition process. We design a hierarchical approach exploring different scales of an observed scene. Each level consists first in segmenting the surface using a multilabel energy model optimized by -expansion and then in fitting 3-D-primitives such as planes, cylinders or tori on the obtained partition where relevant. Experiments on real meshes, depth maps and synthetic surfaces show good potential for the proposed approach.

  5. Rapid Indoor Data Acquisition for Ladm-Based 3d Cadastre Model

    NASA Astrophysics Data System (ADS)

    Jamali, A.; Boguslawski, P.; Duncan, E. E.; Gold, C. M.; Rahman, A. Abdul

    2013-09-01

    2D cadastre has been in existence for decades and most countries have found it convenient. However, in complex situations it has been found to be inadequate as ownership becomes difficult to realise. 3D cadastre data was previously not being collected, thus, making such data even more difficult to realise. 3D data collection for 3D cadastre is one of the main issues for practising surveyors. Several ways of obtaining 3D data exist namely, traditional surveying, terrestrial laser scanning and from Computer Aided Design (CAD) sources. Various data sources have different data structure and a generalized data structure for 3D cadastre hardly reported. A simple and rapid method for indoor data acquisition is proposed. This seeks to determine if the dual half edge data structure is suitable for 3D cadastre. The dual half edge data structure is applied within a graphical user interface. The concept for indoor surveying or data acquisition within the LA_SpatialUnit of the Land Administration Domain Model (LADM) is presented and proposed.

  6. A model-based 3D phase unwrapping algorithm using Gegenbauer polynomials.

    PubMed

    Langley, Jason; Zhao, Qun

    2009-09-01

    The application of a two-dimensional (2D) phase unwrapping algorithm to a three-dimensional (3D) phase map may result in an unwrapped phase map that is discontinuous in the direction normal to the unwrapped plane. This work investigates the problem of phase unwrapping for 3D phase maps. The phase map is modeled as a product of three one-dimensional Gegenbauer polynomials. The orthogonality of Gegenbauer polynomials and their derivatives on the interval [-1, 1] are exploited to calculate the expansion coefficients. The algorithm was implemented using two well-known Gegenbauer polynomials: Chebyshev polynomials of the first kind and Legendre polynomials. Both implementations of the phase unwrapping algorithm were tested on 3D datasets acquired from a magnetic resonance imaging (MRI) scanner. The first dataset was acquired from a homogeneous spherical phantom. The second dataset was acquired using the same spherical phantom but magnetic field inhomogeneities were introduced by an external coil placed adjacent to the phantom, which provided an additional burden to the phase unwrapping algorithm. Then Gaussian noise was added to generate a low signal-to-noise ratio dataset. The third dataset was acquired from the brain of a human volunteer. The results showed that Chebyshev implementation and the Legendre implementation of the phase unwrapping algorithm give similar results on the 3D datasets. Both implementations of the phase unwrapping algorithm compare well to PRELUDE 3D, 3D phase unwrapping software well recognized for functional MRI. PMID:19671967

  7. A model-based 3D phase unwrapping algorithm using Gegenbauer polynomials

    NASA Astrophysics Data System (ADS)

    Langley, Jason; Zhao, Qun

    2009-09-01

    The application of a two-dimensional (2D) phase unwrapping algorithm to a three-dimensional (3D) phase map may result in an unwrapped phase map that is discontinuous in the direction normal to the unwrapped plane. This work investigates the problem of phase unwrapping for 3D phase maps. The phase map is modeled as a product of three one-dimensional Gegenbauer polynomials. The orthogonality of Gegenbauer polynomials and their derivatives on the interval [-1, 1] are exploited to calculate the expansion coefficients. The algorithm was implemented using two well-known Gegenbauer polynomials: Chebyshev polynomials of the first kind and Legendre polynomials. Both implementations of the phase unwrapping algorithm were tested on 3D datasets acquired from a magnetic resonance imaging (MRI) scanner. The first dataset was acquired from a homogeneous spherical phantom. The second dataset was acquired using the same spherical phantom but magnetic field inhomogeneities were introduced by an external coil placed adjacent to the phantom, which provided an additional burden to the phase unwrapping algorithm. Then Gaussian noise was added to generate a low signal-to-noise ratio dataset. The third dataset was acquired from the brain of a human volunteer. The results showed that Chebyshev implementation and the Legendre implementation of the phase unwrapping algorithm give similar results on the 3D datasets. Both implementations of the phase unwrapping algorithm compare well to PRELUDE 3D, 3D phase unwrapping software well recognized for functional MRI.

  8. A 3D model for rubber tyres contact, based on Kalker's methods through the STRIPES model

    NASA Astrophysics Data System (ADS)

    Chollet, Hugues

    2012-01-01

    A project on the pavement-rutting evolution under the effect of a tram on tyre, led the author to make a link between road and railway approaches to the problem of rolling contact. A simplified model is proposed with a fine description of the contact patch between a tyre and the road, and a more realistic pressure and shear stresses distribution than that available from basic models previously available. Experimental measurements are used to identify some characteristics of the force description, while the geometric shape of the tyre-road section are used, like in the traditional rail-wheel contact models, to build the 3D model. The last part validates a plausible contact pressure shape from self-aligning torque measurements and from Kalker's contact stresses gradient applied to the real tyre used in the project. The final result is a brush model extended from the wheel-rail STRIPES one, applicable to dynamics or contact studies of real tyres, with a physical coupling between longitudinal, lateral and spin effects, and a relatively fine description of the contact stresses along each strip of each tyre of the vehicle on an uneven road.

  9. Rapid 3D dynamic arterial spin labeling with a sparse model-based image reconstruction.

    PubMed

    Zhao, Li; Fielden, Samuel W; Feng, Xue; Wintermark, Max; Mugler, John P; Meyer, Craig H

    2015-11-01

    Dynamic arterial spin labeling (ASL) MRI measures the perfusion bolus at multiple observation times and yields accurate estimates of cerebral blood flow in the presence of variations in arterial transit time. ASL has intrinsically low signal-to-noise ratio (SNR) and is sensitive to motion, so that extensive signal averaging is typically required, leading to long scan times for dynamic ASL. The goal of this study was to develop an accelerated dynamic ASL method with improved SNR and robustness to motion using a model-based image reconstruction that exploits the inherent sparsity of dynamic ASL data. The first component of this method is a single-shot 3D turbo spin echo spiral pulse sequence accelerated using a combination of parallel imaging and compressed sensing. This pulse sequence was then incorporated into a dynamic pseudo continuous ASL acquisition acquired at multiple observation times, and the resulting images were jointly reconstructed enforcing a model of potential perfusion time courses. Performance of the technique was verified using a numerical phantom and it was validated on normal volunteers on a 3-Tesla scanner. In simulation, a spatial sparsity constraint improved SNR and reduced estimation errors. Combined with a model-based sparsity constraint, the proposed method further improved SNR, reduced estimation error and suppressed motion artifacts. Experimentally, the proposed method resulted in significant improvements, with scan times as short as 20s per time point. These results suggest that the model-based image reconstruction enables rapid dynamic ASL with improved accuracy and robustness.

  10. 3D force control for robotic-assisted beating heart surgery based on viscoelastic tissue model.

    PubMed

    Liu, Chao; Moreira, Pedro; Zemiti, Nabil; Poignet, Philippe

    2011-01-01

    Current cardiac surgery faces the challenging problem of heart beating motion even with the help of mechanical stabilizer which makes delicate operation on the heart surface difficult. Motion compensation methods for robotic-assisted beating heart surgery have been proposed recently in literature, but research on force control for such kind of surgery has hardly been reported. Moreover, the viscoelasticity property of the interaction between organ tissue and robotic instrument further complicates the force control design which is much easier in other applications by assuming the interaction model to be elastic (industry, stiff object manipulation, etc.). In this work, we present a three-dimensional force control method for robotic-assisted beating heart surgery taking into consideration of the viscoelastic interaction property. Performance studies based on our D2M2 robot and 3D heart beating motion information obtained through Da Vinci™ system are provided.

  11. Status of the phenomena representation, 3D modeling, and cloud-based software architecture development

    SciTech Connect

    Smith, Curtis L.; Prescott, Steven; Kvarfordt, Kellie; Sampath, Ram; Larson, Katie

    2015-09-01

    Early in 2013, researchers at the Idaho National Laboratory outlined a technical framework to support the implementation of state-of-the-art probabilistic risk assessment to predict the safety performance of advanced small modular reactors. From that vision of the advanced framework for risk analysis, specific tasks have been underway in order to implement the framework. This report discusses the current development of a several tasks related to the framework implementation, including a discussion of a 3D physics engine that represents the motion of objects (including collision and debris modeling), cloud-based analysis tools such as a Bayesian-inference engine, and scenario simulations. These tasks were performed during 2015 as part of the technical work associated with the Advanced Reactor Technologies Program.

  12. UAV based 3D digital surface model to estimate paleolandscape in high mountainous environment

    NASA Astrophysics Data System (ADS)

    Mészáros, János; Árvai, Mátyás; Kohán, Balázs; Deák, Márton; Nagy, Balázs

    2016-04-01

    Our method to present current state of a peat bog was focused on the possible use of a UAV-system and later Structure-from-motion algorithms as processing technique. The peat bog site is located on the Vinderel Plateau, Farcǎu Massif, Maramures Mountains (Romania). The peat bog (1530 m a.s.l., N47°54'11", E24°26'37") lies below Rugasu ridge (c. 1820 m a.s.l.) and the locality serves as a conservation area for fallen down coniferous trees. Peat deposits were formed in a landslide concavity on the western slope of Farcǎu Massif. Nowadays the site is surrounded by a completely deforested landscape, and Farcǎu Massif lies above the depressed treeline. The peat bog has an extraordinary geomorphological situation, because a gully reached the bog and drained the water. In the recent past sedimentological and dendrochronological researches have been initiated. However, an accurate 3D digital surface model also needed for a complex paleoenvironmental research. Last autumn the bog and its surroundings were finally surveyed by a multirotor UAV developed in-house based on an open-source flight management unit and its firmware. During this survey a lightweight action camera (mainly to decrease payload weight) was used to take aerial photographs. While our quadcopter is capable to fly automatically on a predefined flight route, several over- and sidelapping flight lines were generated prior to the actual survey on the ground using a control software running on a notebook. Despite those precautions, limited number of batteries and severe weather affected our final flights, resulting a reduced surveyed area around peat bog. Later, during the processing we looked for a reliable tool which powerful enough to process more than 500 photos taken during flights. After testing several software Agisoft PhotoScan was used to create 3D point cloud and mesh about bog and its environment. Due to large number of photographs PhotoScan had to be configured for network processing to get

  13. Matching Aerial Images to 3D Building Models Using Context-Based Geometric Hashing.

    PubMed

    Jung, Jaewook; Sohn, Gunho; Bang, Kiin; Wichmann, Andreas; Armenakis, Costas; Kada, Martin

    2016-01-01

    A city is a dynamic entity, which environment is continuously changing over time. Accordingly, its virtual city models also need to be regularly updated to support accurate model-based decisions for various applications, including urban planning, emergency response and autonomous navigation. A concept of continuous city modeling is to progressively reconstruct city models by accommodating their changes recognized in spatio-temporal domain, while preserving unchanged structures. A first critical step for continuous city modeling is to coherently register remotely sensed data taken at different epochs with existing building models. This paper presents a new model-to-image registration method using a context-based geometric hashing (CGH) method to align a single image with existing 3D building models. This model-to-image registration process consists of three steps: (1) feature extraction; (2) similarity measure; and matching, and (3) estimating exterior orientation parameters (EOPs) of a single image. For feature extraction, we propose two types of matching cues: edged corner features representing the saliency of building corner points with associated edges, and contextual relations among the edged corner features within an individual roof. A set of matched corners are found with given proximity measure through geometric hashing, and optimal matches are then finally determined by maximizing the matching cost encoding contextual similarity between matching candidates. Final matched corners are used for adjusting EOPs of the single airborne image by the least square method based on collinearity equations. The result shows that acceptable accuracy of EOPs of a single image can be achievable using the proposed registration approach as an alternative to a labor-intensive manual registration process. PMID:27338410

  14. Matching Aerial Images to 3D Building Models Using Context-Based Geometric Hashing

    PubMed Central

    Jung, Jaewook; Sohn, Gunho; Bang, Kiin; Wichmann, Andreas; Armenakis, Costas; Kada, Martin

    2016-01-01

    A city is a dynamic entity, which environment is continuously changing over time. Accordingly, its virtual city models also need to be regularly updated to support accurate model-based decisions for various applications, including urban planning, emergency response and autonomous navigation. A concept of continuous city modeling is to progressively reconstruct city models by accommodating their changes recognized in spatio-temporal domain, while preserving unchanged structures. A first critical step for continuous city modeling is to coherently register remotely sensed data taken at different epochs with existing building models. This paper presents a new model-to-image registration method using a context-based geometric hashing (CGH) method to align a single image with existing 3D building models. This model-to-image registration process consists of three steps: (1) feature extraction; (2) similarity measure; and matching, and (3) estimating exterior orientation parameters (EOPs) of a single image. For feature extraction, we propose two types of matching cues: edged corner features representing the saliency of building corner points with associated edges, and contextual relations among the edged corner features within an individual roof. A set of matched corners are found with given proximity measure through geometric hashing, and optimal matches are then finally determined by maximizing the matching cost encoding contextual similarity between matching candidates. Final matched corners are used for adjusting EOPs of the single airborne image by the least square method based on collinearity equations. The result shows that acceptable accuracy of EOPs of a single image can be achievable using the proposed registration approach as an alternative to a labor-intensive manual registration process. PMID:27338410

  15. An imaging-based platform for high-content, quantitative evaluation of therapeutic response in 3D tumour models

    NASA Astrophysics Data System (ADS)

    Celli, Jonathan P.; Rizvi, Imran; Blanden, Adam R.; Massodi, Iqbal; Glidden, Michael D.; Pogue, Brian W.; Hasan, Tayyaba

    2014-01-01

    While it is increasingly recognized that three-dimensional (3D) cell culture models recapitulate drug responses of human cancers with more fidelity than monolayer cultures, a lack of quantitative analysis methods limit their implementation for reliable and routine assessment of emerging therapies. Here, we introduce an approach based on computational analysis of fluorescence image data to provide high-content readouts of dose-dependent cytotoxicity, growth inhibition, treatment-induced architectural changes and size-dependent response in 3D tumour models. We demonstrate this approach in adherent 3D ovarian and pancreatic multiwell extracellular matrix tumour overlays subjected to a panel of clinically relevant cytotoxic modalities and appropriately designed controls for reliable quantification of fluorescence signal. This streamlined methodology reads out the high density of information embedded in 3D culture systems, while maintaining a level of speed and efficiency traditionally achieved with global colorimetric reporters in order to facilitate broader implementation of 3D tumour models in therapeutic screening.

  16. MaxMod: a hidden Markov model based novel interface to MODELLER for improved prediction of protein 3D models.

    PubMed

    Parida, Bikram K; Panda, Prasanna K; Misra, Namrata; Mishra, Barada K

    2015-02-01

    Modeling the three-dimensional (3D) structures of proteins assumes great significance because of its manifold applications in biomolecular research. Toward this goal, we present MaxMod, a graphical user interface (GUI) of the MODELLER program that combines profile hidden Markov model (profile HMM) method with Clustal Omega program to significantly improve the selection of homologous templates and target-template alignment for construction of accurate 3D protein models. MaxMod distinguishes itself from other existing GUIs of MODELLER software by implementing effortless modeling of proteins using templates that bear modified residues. Additionally, it provides various features such as loop optimization, express modeling (a feature where protein model can be generated directly from its sequence, without any further user intervention) and automatic update of PDB database, thus enhancing the user-friendly control of computational tasks. We find that HMM-based MaxMod performs better than other modeling packages in terms of execution time and model quality. MaxMod is freely available as a downloadable standalone tool for academic and non-commercial purpose at http://www.immt.res.in/maxmod/. PMID:25636267

  17. MaxMod: a hidden Markov model based novel interface to MODELLER for improved prediction of protein 3D models.

    PubMed

    Parida, Bikram K; Panda, Prasanna K; Misra, Namrata; Mishra, Barada K

    2015-02-01

    Modeling the three-dimensional (3D) structures of proteins assumes great significance because of its manifold applications in biomolecular research. Toward this goal, we present MaxMod, a graphical user interface (GUI) of the MODELLER program that combines profile hidden Markov model (profile HMM) method with Clustal Omega program to significantly improve the selection of homologous templates and target-template alignment for construction of accurate 3D protein models. MaxMod distinguishes itself from other existing GUIs of MODELLER software by implementing effortless modeling of proteins using templates that bear modified residues. Additionally, it provides various features such as loop optimization, express modeling (a feature where protein model can be generated directly from its sequence, without any further user intervention) and automatic update of PDB database, thus enhancing the user-friendly control of computational tasks. We find that HMM-based MaxMod performs better than other modeling packages in terms of execution time and model quality. MaxMod is freely available as a downloadable standalone tool for academic and non-commercial purpose at http://www.immt.res.in/maxmod/.

  18. VALIDATION OF IMPROVED 3D ATR MODEL

    SciTech Connect

    Soon Sam Kim; Bruce G. Schnitzler

    2005-11-01

    A full-core Monte Carlo based 3D model of the Advanced Test Reactor (ATR) was previously developed. [1] An improved 3D model has been developed by the International Criticality Safety Benchmark Evaluation Project (ICSBEP) to eliminate homogeneity of fuel plates of the old model, incorporate core changes into the new model, and to validate against a newer, more complicated core configuration. This new 3D model adds capability for fuel loading design and azimuthal power peaking studies of the ATR fuel elements.

  19. Edge Based 3d Indoor Corridor Modeling Using a Single Image

    NASA Astrophysics Data System (ADS)

    Baligh Jahromi, A.; Sohn, G.

    2015-08-01

    Reconstruction of spatial layout of indoor scenes from a single image is inherently an ambiguous problem. However, indoor scenes are usually comprised of orthogonal planes. The regularity of planar configuration (scene layout) is often recognizable, which provides valuable information for understanding the indoor scenes. Most of the current methods define the scene layout as a single cubic primitive. This domain-specific knowledge is often not valid in many indoors where multiple corridors are linked each other. In this paper, we aim to address this problem by hypothesizing-verifying multiple cubic primitives representing the indoor scene layout. This method utilizes middle-level perceptual organization, and relies on finding the ground-wall and ceiling-wall boundaries using detected line segments and the orthogonal vanishing points. A comprehensive interpretation of these edge relations is often hindered due to shadows and occlusions. To handle this problem, the proposed method introduces virtual rays which aid in the creation of a physically valid cubic structure by using orthogonal vanishing points. The straight line segments are extracted from the single image and the orthogonal vanishing points are estimated by employing the RANSAC approach. Many scene layout hypotheses are created through intersecting random line segments and virtual rays of vanishing points. The created hypotheses are evaluated by a geometric reasoning-based objective function to find the best fitting hypothesis to the image. The best model hypothesis offered with the highest score is then converted to a 3D model. The proposed method is fully automatic and no human intervention is necessary to obtain an approximate 3D reconstruction.

  20. 3D choroid neovascularization growth prediction based on reaction-diffusion model

    NASA Astrophysics Data System (ADS)

    Zhu, Shuxia; Chen, Xinjian; Shi, Fei; Xiang, Dehui; Zhu, Weifang; Chen, Haoyu

    2016-03-01

    Choroid neovascularization (CNV) is a kind of pathology from the choroid and CNV-related disease is one important cause of vision loss. It is desirable to predict the CNV growth rate so that appropriate treatment can be planned. In this paper, we seek to find a method to predict the growth of CNV based on 3D longitudinal Optical Coherence Tomography (OCT) images. A reaction-diffusion model is proposed for prediction. The method consists of four phases: pre-processing, meshing, CNV growth modeling and prediction. We not only apply the reaction-diffusion model to the disease region, but also take the surrounding tissues into consideration including outer retinal layer, inner retinal layer and choroid layer. The diffusion in these tissues is considered as isotropic. The finite-element-method (FEM) is used to solve the partial differential equations (PDE) in the diffusion model. The curve of CNV growth with treatment are fitted and then we can predict the CNV status in a future time point. The preliminary results demonstrated that our proposed method is accurate and the validity and feasibility of our model is obvious.

  1. First Steps Towards AN Integrated Citygml-Based 3d Model of Vienna

    NASA Astrophysics Data System (ADS)

    Agugiaro, G.

    2016-06-01

    This paper presents and discusses the results regarding the initial steps (selection, analysis, preparation and eventual integration of a number of datasets) for the creation of an integrated, semantic, three-dimensional, and CityGML-based virtual model of the city of Vienna. CityGML is an international standard conceived specifically as information and data model for semantic city models at urban and territorial scale. It is being adopted by more and more cities all over the world. The work described in this paper is embedded within the European Marie-Curie ITN project "Ci-nergy, Smart cities with sustainable energy systems", which aims, among the rest, at developing urban decision making and operational optimisation software tools to minimise non-renewable energy use in cities. Given the scope and scale of the project, it is therefore vital to set up a common, unique and spatio-semantically coherent urban model to be used as information hub for all applications being developed. This paper reports about the experiences done so far, it describes the test area and the available data sources, it shows and exemplifies the data integration issues, the strategies developed to solve them in order to obtain the integrated 3D city model. The first results as well as some comments about their quality and limitations are presented, together with the discussion regarding the next steps and some planned improvements.

  2. Model-based measurement of food portion size for image-based dietary assessment using 3D/2D registration

    NASA Astrophysics Data System (ADS)

    Chen, Hsin-Chen; Jia, Wenyan; Yue, Yaofeng; Li, Zhaoxin; Sun, Yung-Nien; Fernstrom, John D.; Sun, Mingui

    2013-10-01

    Dietary assessment is important in health maintenance and intervention in many chronic conditions, such as obesity, diabetes and cardiovascular disease. However, there is currently a lack of convenient methods for measuring the volume of food (portion size) in real-life settings. We present a computational method to estimate food volume from a single photographic image of food contained on a typical dining plate. First, we calculate the food location with respect to a 3D camera coordinate system using the plate as a scale reference. Then, the food is segmented automatically from the background in the image. Adaptive thresholding and snake modeling are implemented based on several image features, such as color contrast, regional color homogeneity and curve bending degree. Next, a 3D model representing the general shape of the food (e.g., a cylinder, a sphere, etc) is selected from a pre-constructed shape model library. The position, orientation and scale of the selected shape model are determined by registering the projected 3D model and the food contour in the image, where the properties of the reference are used as constraints. Experimental results using various realistically shaped foods with known volumes demonstrated satisfactory performance of our image-based food volume measurement method even if the 3D geometric surface of the food is not completely represented in the input image.

  3. RGB-D Indoor Plane-based 3D-Modeling using Autonomous Robot

    NASA Astrophysics Data System (ADS)

    Mostofi, N.; Moussa, A.; Elhabiby, M.; El-Sheimy, N.

    2014-11-01

    3D model of indoor environments provide rich information that can facilitate the disambiguation of different places and increases the familiarization process to any indoor environment for the remote users. In this research work, we describe a system for visual odometry and 3D modeling using information from RGB-D sensor (Camera). The visual odometry method estimates the relative pose of the consecutive RGB-D frames through feature extraction and matching techniques. The pose estimated by visual odometry algorithm is then refined with iterative closest point (ICP) method. The switching technique between ICP and visual odometry in case of no visible features suppresses inconsistency in the final developed map. Finally, we add the loop closure to remove the deviation between first and last frames. In order to have a semantic meaning out of 3D models, the planar patches are segmented from RGB-D point clouds data using region growing technique followed by convex hull method to assign boundaries to the extracted patches. In order to build a final semantic 3D model, the segmented patches are merged using relative pose information obtained from the first step.

  4. 3D facial expression modeling for recognition

    NASA Astrophysics Data System (ADS)

    Lu, Xiaoguang; Jain, Anil K.; Dass, Sarat C.

    2005-03-01

    Current two-dimensional image based face recognition systems encounter difficulties with large variations in facial appearance due to the pose, illumination and expression changes. Utilizing 3D information of human faces is promising for handling the pose and lighting variations. While the 3D shape of a face does not change due to head pose (rigid) and lighting changes, it is not invariant to the non-rigid facial movement and evolution, such as expressions and aging effect. We propose a facial surface matching framework to match multiview facial scans to a 3D face model, where the (non-rigid) expression deformation is explicitly modeled for each subject, resulting in a person-specific deformation model. The thin plate spline (TPS) is applied to model the deformation based on the facial landmarks. The deformation is applied to the 3D neutral expression face model to synthesize the corresponding expression. Both the neutral and the synthesized 3D surface models are used to match a test scan. The surface registration and matching between a test scan and a 3D model are achieved by a modified Iterative Closest Point (ICP) algorithm. Preliminary experimental results demonstrate that the proposed expression modeling and recognition-by-synthesis schemes improve the 3D matching accuracy.

  5. GIS Data Based Automatic High-Fidelity 3D Road Network Modeling

    NASA Technical Reports Server (NTRS)

    Wang, Jie; Shen, Yuzhong

    2011-01-01

    3D road models are widely used in many computer applications such as racing games and driving simulations_ However, almost all high-fidelity 3D road models were generated manually by professional artists at the expense of intensive labor. There are very few existing methods for automatically generating 3D high-fidelity road networks, especially those existing in the real world. This paper presents a novel approach thai can automatically produce 3D high-fidelity road network models from real 2D road GIS data that mainly contain road. centerline in formation. The proposed method first builds parametric representations of the road centerlines through segmentation and fitting . A basic set of civil engineering rules (e.g., cross slope, superelevation, grade) for road design are then selected in order to generate realistic road surfaces in compliance with these rules. While the proposed method applies to any types of roads, this paper mainly addresses automatic generation of complex traffic interchanges and intersections which are the most sophisticated elements in the road networks

  6. Knowledge Based 3d Building Model Recognition Using Convolutional Neural Networks from LIDAR and Aerial Imageries

    NASA Astrophysics Data System (ADS)

    Alidoost, F.; Arefi, H.

    2016-06-01

    In recent years, with the development of the high resolution data acquisition technologies, many different approaches and algorithms have been presented to extract the accurate and timely updated 3D models of buildings as a key element of city structures for numerous applications in urban mapping. In this paper, a novel and model-based approach is proposed for automatic recognition of buildings' roof models such as flat, gable, hip, and pyramid hip roof models based on deep structures for hierarchical learning of features that are extracted from both LiDAR and aerial ortho-photos. The main steps of this approach include building segmentation, feature extraction and learning, and finally building roof labeling in a supervised pre-trained Convolutional Neural Network (CNN) framework to have an automatic recognition system for various types of buildings over an urban area. In this framework, the height information provides invariant geometric features for convolutional neural network to localize the boundary of each individual roofs. CNN is a kind of feed-forward neural network with the multilayer perceptron concept which consists of a number of convolutional and subsampling layers in an adaptable structure and it is widely used in pattern recognition and object detection application. Since the training dataset is a small library of labeled models for different shapes of roofs, the computation time of learning can be decreased significantly using the pre-trained models. The experimental results highlight the effectiveness of the deep learning approach to detect and extract the pattern of buildings' roofs automatically considering the complementary nature of height and RGB information.

  7. Motion corrected LV quantification based on 3D modelling for improved functional assessment in cardiac MRI

    NASA Astrophysics Data System (ADS)

    Liew, Y. M.; McLaughlin, R. A.; Chan, B. T.; Aziz, Y. F. Abdul; Chee, K. H.; Ung, N. M.; Tan, L. K.; Lai, K. W.; Ng, S.; Lim, E.

    2015-04-01

    Cine MRI is a clinical reference standard for the quantitative assessment of cardiac function, but reproducibility is confounded by motion artefacts. We explore the feasibility of a motion corrected 3D left ventricle (LV) quantification method, incorporating multislice image registration into the 3D model reconstruction, to improve reproducibility of 3D LV functional quantification. Multi-breath-hold short-axis and radial long-axis images were acquired from 10 patients and 10 healthy subjects. The proposed framework reduced misalignment between slices to subpixel accuracy (2.88 to 1.21 mm), and improved interstudy reproducibility for 5 important clinical functional measures, i.e. end-diastolic volume, end-systolic volume, ejection fraction, myocardial mass and 3D-sphericity index, as reflected in a reduction in the sample size required to detect statistically significant cardiac changes: a reduction of 21-66%. Our investigation on the optimum registration parameters, including both cardiac time frames and number of long-axis (LA) slices, suggested that a single time frame is adequate for motion correction whereas integrating more LA slices can improve registration and model reconstruction accuracy for improved functional quantification especially on datasets with severe motion artefacts.

  8. Generic precise augmented reality guiding system and its calibration method based on 3D virtual model.

    PubMed

    Liu, Miao; Yang, Shourui; Wang, Zhangying; Huang, Shujun; Liu, Yue; Niu, Zhenqi; Zhang, Xiaoxuan; Zhu, Jigui; Zhang, Zonghua

    2016-05-30

    Augmented reality system can be applied to provide precise guidance for various kinds of manual works. The adaptability and guiding accuracy of such systems are decided by the computational model and the corresponding calibration method. In this paper, a novel type of augmented reality guiding system and the corresponding designing scheme are proposed. Guided by external positioning equipment, the proposed system can achieve high relative indication accuracy in a large working space. Meanwhile, the proposed system is realized with a digital projector and the general back projection model is derived with geometry relationship between digitized 3D model and the projector in free space. The corresponding calibration method is also designed for the proposed system to obtain the parameters of projector. To validate the proposed back projection model, the coordinate data collected by a 3D positioning equipment is used to calculate and optimize the extrinsic parameters. The final projecting indication accuracy of the system is verified with subpixel pattern projecting technique.

  9. Novel, fast and efficient image-based 3D modeling method and its application in fracture risk evaluation

    PubMed Central

    LI, DAN; XIAO, ZHITAO; WANG, GANG; ZHAO, GUOQING

    2014-01-01

    Constructing models based on computed tomography images for finite element analysis (FEA) is challenging under pathological conditions. In the present study, an innovative method was introduced that uses Siemens syngo® 3D software for processing models and Mimics software for further modeling. Compared with the slice-by-slice traditional manual margin discrimination, the new 3D modeling method utilizes automatic tissue margin determination and 3D cutting using syngo software. The modeling morphologies of the two methods were similar; however, the 3D modeling method was 8–10 times faster than the traditional method, particularly in cases with osteoporosis and osteophytes. A comparative FEA study of the lumbar spines of young and elderly patients, on the basis of the models constructed by the 3D modeling method, showed peak stress elevation in the vertebrae of elderly patients. Stress distribution was homogeneous in the entire vertebrae of young individuals. By contrast, stress redistribution in the vertebrae of the elderly was concentrated in the anterior cortex of the vertebrae, which explains the high fracture risk mechanism in elderly individuals. In summary, the new 3D modeling method is highly efficient, accurate and faster than traditional methods. The method also allows reliable FEA in pathological cases with osteoporosis and osteophytes. PMID:24926348

  10. Making Inexpensive 3-D Models

    NASA Astrophysics Data System (ADS)

    Manos, Harry

    2016-03-01

    Visual aids are important to student learning, and they help make the teacher's job easier. Keeping with the TPT theme of "The Art, Craft, and Science of Physics Teaching," the purpose of this article is to show how teachers, lacking equipment and funds, can construct a durable 3-D model reference frame and a model gravity well tailored to specific class lessons. Most of the supplies are readily available in the home or at school: rubbing alcohol, a rag, two colors of spray paint, art brushes, and masking tape. The cost of these supplies, if you don't have them, is less than 20.

  11. Minimal camera networks for 3D image based modeling of cultural heritage objects.

    PubMed

    Alsadik, Bashar; Gerke, Markus; Vosselman, George; Daham, Afrah; Jasim, Luma

    2014-03-25

    3D modeling of cultural heritage objects like artifacts, statues and buildings is nowadays an important tool for virtual museums, preservation and restoration. In this paper, we introduce a method to automatically design a minimal imaging network for the 3D modeling of cultural heritage objects. This becomes important for reducing the image capture time and processing when documenting large and complex sites. Moreover, such a minimal camera network design is desirable for imaging non-digitally documented artifacts in museums and other archeological sites to avoid disturbing the visitors for a long time and/or moving delicate precious objects to complete the documentation task. The developed method is tested on the Iraqi famous statue "Lamassu". Lamassu is a human-headed winged bull of over 4.25 m in height from the era of Ashurnasirpal II (883-859 BC). Close-range photogrammetry is used for the 3D modeling task where a dense ordered imaging network of 45 high resolution images were captured around Lamassu with an object sample distance of 1 mm. These images constitute a dense network and the aim of our study was to apply our method to reduce the number of images for the 3D modeling and at the same time preserve pre-defined point accuracy. Temporary control points were fixed evenly on the body of Lamassu and measured by using a total station for the external validation and scaling purpose. Two network filtering methods are implemented and three different software packages are used to investigate the efficiency of the image orientation and modeling of the statue in the filtered (reduced) image networks. Internal and external validation results prove that minimal image networks can provide highly accurate records and efficiency in terms of visualization, completeness, processing time (>60% reduction) and the final accuracy of 1 mm.

  12. Enzymes/non-enzymes classification model complexity based on composition, sequence, 3D and topological indices.

    PubMed

    Munteanu, Cristian Robert; González-Díaz, Humberto; Magalhães, Alexandre L

    2008-09-21

    The huge amount of new proteins that need a fast enzymatic activity characterization creates demands of protein QSAR theoretical models. The protein parameters that can be used for an enzyme/non-enzyme classification includes the simpler indices such as composition, sequence and connectivity, also called topological indices (TIs) and the computationally expensive 3D descriptors. A comparison of the 3D versus lower dimension indices has not been reported with respect to the power of discrimination of proteins according to enzyme action. A set of 966 proteins (enzymes and non-enzymes) whose structural characteristics are provided by PDB/DSSP files was analyzed with Python/Biopython scripts, STATISTICA and Weka. The list of indices includes, but it is not restricted to pure composition indices (residue fractions), DSSP secondary structure protein composition and 3D indices (surface and access). We also used mixed indices such as composition-sequence indices (Chou's pseudo-amino acid compositions or coupling numbers), 3D-composition (surface fractions) and DSSP secondary structure amino acid composition/propensities (obtained with our Prot-2S Web tool). In addition, we extend and test for the first time several classic TIs for the Randic's protein sequence Star graphs using our Sequence to Star Graph (S2SG) Python application. All the indices were processed with general discriminant analysis models (GDA), neural networks (NN) and machine learning (ML) methods and the results are presented versus complexity, average of Shannon's information entropy (Sh) and data/method type. This study compares for the first time all these classes of indices to assess the ratios between model accuracy and indices/model complexity in enzyme/non-enzyme discrimination. The use of different methods and complexity of data shows that one cannot establish a direct relation between the complexity and the accuracy of the model. PMID:18606172

  13. Minimal Camera Networks for 3D Image Based Modeling of Cultural Heritage Objects

    PubMed Central

    Alsadik, Bashar; Gerke, Markus; Vosselman, George; Daham, Afrah; Jasim, Luma

    2014-01-01

    3D modeling of cultural heritage objects like artifacts, statues and buildings is nowadays an important tool for virtual museums, preservation and restoration. In this paper, we introduce a method to automatically design a minimal imaging network for the 3D modeling of cultural heritage objects. This becomes important for reducing the image capture time and processing when documenting large and complex sites. Moreover, such a minimal camera network design is desirable for imaging non-digitally documented artifacts in museums and other archeological sites to avoid disturbing the visitors for a long time and/or moving delicate precious objects to complete the documentation task. The developed method is tested on the Iraqi famous statue “Lamassu”. Lamassu is a human-headed winged bull of over 4.25 m in height from the era of Ashurnasirpal II (883–859 BC). Close-range photogrammetry is used for the 3D modeling task where a dense ordered imaging network of 45 high resolution images were captured around Lamassu with an object sample distance of 1 mm. These images constitute a dense network and the aim of our study was to apply our method to reduce the number of images for the 3D modeling and at the same time preserve pre-defined point accuracy. Temporary control points were fixed evenly on the body of Lamassu and measured by using a total station for the external validation and scaling purpose. Two network filtering methods are implemented and three different software packages are used to investigate the efficiency of the image orientation and modeling of the statue in the filtered (reduced) image networks. Internal and external validation results prove that minimal image networks can provide highly accurate records and efficiency in terms of visualization, completeness, processing time (>60% reduction) and the final accuracy of 1 mm. PMID:24670718

  14. Data based 3D modelling of the southwest African continental margin

    NASA Astrophysics Data System (ADS)

    Freymark, J.; Sippel, J.; Scheck-Wenderoth, M.; Götze, H.-J.; Reichert, C.

    2012-04-01

    The volcanic passive continental margin of southwest Africa was formed in consequence of rifting and continental break-up of Gondwana in the Late Mesozoic. Our study focusses on an area extending from the Walvis Ridge in the north to the Agulhas Falkland Fracture Zone in the south including some important petroliferous sedimentary basins such as the Walvis Basin, the Luderitz Basin, and the Orange Basin. Due to decades of industrial exploration and scientific research, some of these areas reveal a large pool of structural and geophysical data. Thus, much is known about the individual tectonic and depositional histories of several subdomains of the area. The goal of our study is to understand the margin in its entirety. We present a 3D model of the present-day configuration of the southwest African continental margin. This model integrates well information, seismic reflection and refraction data, a previously published 3D structural model (Maystrenko et al., 2011), as well as freely available global data sets on the crustal structure (e.g. crust2.0 of Bassin, Laske & Masters, 2000). To extrapolate local information on crustal thickness (respectively the depth of the Moho) across the whole margin, we perform 3D gravity modelling using the software IGMAS+ (Götze & Schmidt, 2010; Schmidt et al., 2011). As parts of the first results, we show margin-wide depth and thickness distributions of a Palaeozoic to Cenozoic sedimentary layer and a Paleoproterozoic to Mesozoic crystalline crustal layer.

  15. Exploration criteria for mineral target mapping based on 3D geological modeling in the Taebaek mineralized belt in Korea

    NASA Astrophysics Data System (ADS)

    Oh, H. J.; Kihm, Y. H.; Cho, S. J.

    2015-12-01

    We constructed a three-dimensional (3D) geological model based on a 1:50,000-scaled geologic map and determined the exploration criteria for skarn deposit target mapping in the Taebaek mineralized belt. All available geological and geophysical data were compiled in a 3D computing environment using GOCAD software. Twenty-four stratigraphic horizons and more than 100 fault surfaces are defined in the 3D geological model. The primary geological criteria for skarn mineralization in the Taebaek mineralized belt included the presence of an NE-oriented strike-slip fault, key stratigraphic horizons, and a high magnetic susceptibility anomaly based on 3D inversion of magnetic data. The 3D geological criteria were extracted from the 3D geological model for skarn deposit target mapping in the belt. The distance values of the three criteria (NE strike-slip fault, limestone horizon, and area of high magnetic susceptibility) were divided into four classes based on cutoff values determined by experts. The weight values for all of the geological criteria and the score value for each class of the distance criteria were also estimated based on expert knowledge. The weights and scores of geological criteria derived from expert knowledge serve as useful guides for target mapping in the Taebaek mineralized belt.

  16. Automated Feature Based Tls Data Registration for 3d Building Modeling

    NASA Astrophysics Data System (ADS)

    Kitamura, K.; Kochi, N.; Kaneko, S.

    2012-07-01

    In this paper we present a novel method for the registration of point cloud data obtained using terrestrial laser scanner (TLS). The final goal of our investigation is the automated reconstruction of CAD drawings and the 3D modeling of objects surveyed by TLS. Because objects are scanned from multiple positions, individual point cloud need to be registered to the same coordinate system. We propose in this paper an automated feature based registration procedure. Our proposed method does not require the definition of initial values or the placement of targets and is robust against noise and background elements. A feature extraction procedure is performed for each point cloud as pre-processing. The registration of the point clouds from different viewpoints is then performed by utilizing the extracted features. The feature extraction method which we had developed previously (Kitamura, 2010) is used: planes and edges are extracted from the point cloud. By utilizing these features, the amount of information to process is reduced and the efficiency of the whole registration procedure is increased. In this paper, we describe the proposed algorithm and, in order to demonstrate its effectiveness, we show the results obtained by using real data.

  17. Digital relief generation from 3D models

    NASA Astrophysics Data System (ADS)

    Wang, Meili; Sun, Yu; Zhang, Hongming; Qian, Kun; Chang, Jian; He, Dongjian

    2016-09-01

    It is difficult to extend image-based relief generation to high-relief generation, as the images contain insufficient height information. To generate reliefs from three-dimensional (3D) models, it is necessary to extract the height fields from the model, but this can only generate bas-reliefs. To overcome this problem, an efficient method is proposed to generate bas-reliefs and high-reliefs directly from 3D meshes. To produce relief features that are visually appropriate, the 3D meshes are first scaled. 3D unsharp masking is used to enhance the visual features in the 3D mesh, and average smoothing and Laplacian smoothing are implemented to achieve better smoothing results. A nonlinear variable scaling scheme is then employed to generate the final bas-reliefs and high-reliefs. Using the proposed method, relief models can be generated from arbitrary viewing positions with different gestures and combinations of multiple 3D models. The generated relief models can be printed by 3D printers. The proposed method provides a means of generating both high-reliefs and bas-reliefs in an efficient and effective way under the appropriate scaling factors.

  18. Integrated VR platform for 3D and image-based models: a step toward interactive image-based virtual environments

    NASA Astrophysics Data System (ADS)

    Yoon, Jayoung; Kim, Gerard J.

    2003-04-01

    Traditionally, three dimension models have been used for building virtual worlds, and a data structure called the "scene graph" is often employed to organize these 3D objects in the virtual space. On the other hand, image-based rendering has recently been suggested as a probable alternative VR platform for its photo-realism, however, due to limited interactivity, it has only been used for simple navigation systems. To combine the merits of these two approaches to object/scene representations, this paper proposes for a scene graph structure in which both 3D models and various image-based scenes/objects can be defined, traversed, and rendered together. In fact, as suggested by Shade et al., these different representations can be used as different LOD's for a given object. For instance, an object might be rendered using a 3D model at close range, a billboard at an intermediate range, and as part of an environment map at far range. The ultimate objective of this mixed platform is to breath more interactivity into the image based rendered VE's by employing 3D models as well. There are several technical challenges in devising such a platform: designing scene graph nodes for various types of image based techniques, establishing criteria for LOD/representation selection, handling their transitions, implementing appropriate interaction schemes, and correctly rendering the overall scene. Currently, we have extended the scene graph structure of the Sense8's WorldToolKit, to accommodate new node types for environment maps billboards, moving textures and sprites, "Tour-into-the-Picture" structure, and view interpolated objects. As for choosing the right LOD level, the usual viewing distance and image space criteria are used, however, the switching between the image and 3D model occurs at a distance from the user where the user starts to perceive the object's internal depth. Also, during interaction, regardless of the viewing distance, a 3D representation would be used, it if

  19. A full-spectrum 3D noise-based infrared imaging sensor model

    NASA Astrophysics Data System (ADS)

    Richwine, Robert; Sood, Ashok; Puri, Yash; Heckathorn, Harry; Wilson, Larry; Goldspiel, Jules

    2006-08-01

    This model was developed in matlab with I/O links to excel spreadsheets to add realistic and accurate sensor effects to scene generator or actual sensor/camera images. The model imports scene generator or sensor images, converts these radiance images into electron maps and digital count maps, and modifies these images in accordance with user-defined sensor characteristics such as the response map, the detector dark current map, defective pixel maps, and 3-D noise (temporal and spatial noise). The model provides realistic line-of-sight motion and accurate and dynamic PSF blurring of the images. The sensor model allows for the import of raw nonuniformities in dark current and photoresponse, performs a user-defined two-point nonuniformity correction to calculate gain and offset terms and applies these terms to subsequent scene images. Some of the model's capabilities include the ability to fluctuate or ramp FPA and optics temperatures, or modify the PSF on a frame-by-frame basis. The model also functions as an FPA/sensor performance predictor and an FPA data analysis tool as FPA data frames can be input into the 3-D noise evaluation section of the model. The model was developed to produce realistic infrared images for IR sensors.

  20. A web-based 3D visualisation and assessment system for urban precinct scenario modelling

    NASA Astrophysics Data System (ADS)

    Trubka, Roman; Glackin, Stephen; Lade, Oliver; Pettit, Chris

    2016-07-01

    Recent years have seen an increasing number of spatial tools and technologies for enabling better decision-making in the urban environment. They have largely arisen because of the need for cities to be more efficiently planned to accommodate growing populations while mitigating urban sprawl, and also because of innovations in rendering data in 3D being well suited for visualising the urban built environment. In this paper we review a number of systems that are better known and more commonly used in the field of urban planning. We then introduce Envision Scenario Planner (ESP), a web-based 3D precinct geodesign, visualisation and assessment tool, developed using Agile and Co-design methods. We provide a comprehensive account of the tool, beginning with a discussion of its design and development process and concluding with an example use case and a discussion of the lessons learned in its development.

  1. NUBEAM developments and 3d halo modeling

    NASA Astrophysics Data System (ADS)

    Gorelenkova, M. V.; Medley, S. S.; Kaye, S. M.

    2012-10-01

    Recent developments related to the 3D halo model in NUBEAM code are described. To have a reliable halo neutral source for diagnostic simulation, the TRANSP/NUBEAM code has been enhanced with full implementation of ADAS atomic physic ground state and excited state data for hydrogenic beams and mixed species plasma targets. The ADAS codes and database provide the density and temperature dependence of the atomic data, and the collective nature of the state excitation process. To be able to populate 3D halo output with sufficient statistical resolution, the capability to control the statistics of fast ion CX modeling and for thermal halo launch has been added to NUBEAM. The 3D halo neutral model is based on modification and extension of the ``beam in box'' aligned 3d Cartesian grid that includes the neutral beam itself, 3D fast neutral densities due to CX of partially slowed down fast ions in the beam halo region, 3D thermal neutral densities due to CX deposition and fast neutral recapture source. More details on the 3D halo simulation design will be presented.

  2. Transferring Multi-Scale Approaches from 3d City Modeling to Ifc-Based Tunnel Modeling

    NASA Astrophysics Data System (ADS)

    Borrmann, A.; Kolbe, T. H.; Donaubauer, A.; Steuer, H.; Jubierre, J. R.

    2013-09-01

    A multi-scale representation of the built environment is required to provide information with the adequate level of detail (LoD) for different use cases and objectives. This applies not only to the visualization of city and building models, but in particular to their use in the context of planning and analysis tasks. While in the field of Geographic Information Systems, the handling of multi-scale representations is well established and understood, no formal approaches for incorporating multi-scale methods exist in the field of Building Information Modeling (BIM) so far. However, these concepts are much needed to better support highly dynamic planning processes that make use of very rough information about the facility under design in the early stages and provide increasingly detailed and fine-grained information in later stages. To meet these demands, this paper presents a comprehensive concept for incorporating multi-scale representations with infrastructural building information models, with a particular focus on the representation of shield tunnels. Based on a detailed analysis of the data modeling methods used in CityGML for capturing multiscale representations and the requirements present in the context of infrastructure planning projects, we discuss potential extensions to the BIM data model Industry Foundation Classes (IFC). Particular emphasis is put on providing means for preserving the consistency of the representation across the different Levels-of-Detail (LoD). To this end we make use of a procedural geometry description which makes it possible to define explicit dependencies between geometric entities on different LoDs. The modification of an object on a coarse level consequently results in an automated update of all dependent objects on the finer levels. Finally we discuss the transformation of the IFC-based multi-scale tunnel model into a CityGML compliant tunnel representation.

  3. Generic precise augmented reality guiding system and its calibration method based on 3D virtual model.

    PubMed

    Liu, Miao; Yang, Shourui; Wang, Zhangying; Huang, Shujun; Liu, Yue; Niu, Zhenqi; Zhang, Xiaoxuan; Zhu, Jigui; Zhang, Zonghua

    2016-05-30

    Augmented reality system can be applied to provide precise guidance for various kinds of manual works. The adaptability and guiding accuracy of such systems are decided by the computational model and the corresponding calibration method. In this paper, a novel type of augmented reality guiding system and the corresponding designing scheme are proposed. Guided by external positioning equipment, the proposed system can achieve high relative indication accuracy in a large working space. Meanwhile, the proposed system is realized with a digital projector and the general back projection model is derived with geometry relationship between digitized 3D model and the projector in free space. The corresponding calibration method is also designed for the proposed system to obtain the parameters of projector. To validate the proposed back projection model, the coordinate data collected by a 3D positioning equipment is used to calculate and optimize the extrinsic parameters. The final projecting indication accuracy of the system is verified with subpixel pattern projecting technique. PMID:27410124

  4. Virtual Boutique: a 3D modeling and content-based management approach to e-commerce

    NASA Astrophysics Data System (ADS)

    Paquet, Eric; El-Hakim, Sabry F.

    2000-12-01

    The Virtual Boutique is made out of three modules: the decor, the market and the search engine. The decor is the physical space occupied by the Virtual Boutique. It can reproduce any existing boutique. For this purpose, photogrammetry is used. A set of pictures of a real boutique or space is taken and a virtual 3D representation of this space is calculated from them. Calculations are performed with software developed at NRC. This representation consists of meshes and texture maps. The camera used in the acquisition process determines the resolution of the texture maps. Decorative elements are added like painting, computer generated objects and scanned objects. The objects are scanned with laser scanner developed at NRC. This scanner allows simultaneous acquisition of range and color information based on white laser beam triangulation. The second module, the market, is made out of all the merchandises and the manipulators, which are used to manipulate and compare the objects. The third module, the search engine, can search the inventory based on an object shown by the customer in order to retrieve similar objects base don shape and color. The items of interest are displayed in the boutique by reconfiguring the market space, which mean that the boutique can be continuously customized according to the customer's needs. The Virtual Boutique is entirely written in Java 3D and can run in mono and stereo mode and has been optimized in order to allow high quality rendering.

  5. Development of a flocculation sub-model for a 3-D CFD model based on rectangular settling tanks.

    PubMed

    Gong, M; Xanthos, S; Ramalingam, K; Fillos, J; Beckmann, K; Deur, A; McCorquodale, J A

    2011-01-01

    To assess performance and evaluate alternatives to improve the efficiency of rectangular Gould II type final settling tanks (FSTs), New York City Department of Environmental Protection and City College of NY developed a 3D computer model depicting the actual structural configuration of the tanks and the current and proposed hydraulic and solids loading rates. Fluent 6.3.26™ was the base platform for the computational fluid dynamics (CFD) model, for which sub-models of the SS settling characteristics, turbulence, flocculation and rheology were incorporated. This was supplemented by field and bench scale experiments to quantify the coefficients integral to the sub-models. The 3D model developed can be used to consider different baffle arrangements, sludge withdrawal mechanisms and loading alternatives to the FSTs. Flocculation in the front half of the rectangular tank especially in the region before and after the inlet baffle is one of the vital parameters that influences the capture efficiency of SS. Flocculation could be further improved by capturing medium and small size particles by creating an additional zone with an in-tank baffle. This was one of the methods that was adopted in optimizing the performance of the tank where the CCNY 3D CFD model was used to locate the in-tank baffle position. This paper describes the development of the flocculation sub-model and the relationship of the flocculation coefficients in the known Parker equation to the initial mixed liquor suspended solids (MLSS) concentration X0. A new modified equation is proposed removing the dependency of the breakup coefficient to the initial value of X0 based on preliminary data using normal and low concentration mixed liquor suspended solids values in flocculation experiments performed.

  6. 3-D model-based frame interpolation for distributed video coding of static scenes.

    PubMed

    Maitre, Matthieu; Guillemot, Christine; Morin, Luce

    2007-05-01

    This paper addresses the problem of side information extraction for distributed coding of videos captured by a camera moving in a 3-D static environment. Examples of targeted applications are augmented reality, remote-controlled robots operating in hazardous environments, or remote exploration by drones. It explores the benefits of the structure-from-motion paradigm for distributed coding of this type of video content. Two interpolation methods constrained by the scene geometry, based either on block matching along epipolar lines or on 3-D mesh fitting, are first developed. These techniques are based on a robust algorithm for sub-pel matching of feature points, which leads to semi-dense correspondences between key frames. However, their rate-distortion (RD) performances are limited by misalignments between the side information and the actual Wyner-Ziv (WZ) frames due to the assumption of linear motion between key frames. To cope with this problem, two feature point tracking techniques are introduced, which recover the camera parameters of the WZ frames. A first technique, in which the frames remain encoded separately, performs tracking at the decoder and leads to significant RD performance gains. A second technique further improves the RD performances by allowing a limited tracking at the encoder. As an additional benefit, statistics on tracks allow the encoder to adapt the key frame frequency to the video motion content.

  7. Using Geometry-Based Metrics as Part of Fitness-for-Purpose Evaluations of 3D City Models

    NASA Astrophysics Data System (ADS)

    Wong, K.; Ellul, C.

    2016-10-01

    Three-dimensional geospatial information is being increasingly used in a range of tasks beyond visualisation. 3D datasets, however, are often being produced without exact specifications and at mixed levels of geometric complexity. This leads to variations within the models' geometric and semantic complexity as well as the degree of deviation from the corresponding real world objects. Existing descriptors and measures of 3D data such as CityGML's level of detail are perhaps only partially sufficient in communicating data quality and fitness-for-purpose. This study investigates whether alternative, automated, geometry-based metrics describing the variation of complexity within 3D datasets could provide additional relevant information as part of a process of fitness-for-purpose evaluation. The metrics include: mean vertex/edge/face counts per building; vertex/face ratio; minimum 2D footprint area and; minimum feature length. Each metric was tested on six 3D city models from international locations. The results show that geometry-based metrics can provide additional information on 3D city models as part of fitness-for-purpose evaluations. The metrics, while they cannot be used in isolation, may provide a complement to enhance existing data descriptors if backed up with local knowledge, where possible.

  8. Stress Analysis of a Class II MO-Restored Tooth Using a 3D CT-Based Finite Element Model

    PubMed Central

    Chan, Yiu Pong; Tang, Chak Yin; Gao, Bo

    2012-01-01

    A computational method has been developed for stress analysis of a restored tooth so that experimental effort can be minimized. The objectives of this study include (i) developing a method to create a 3D FE assembly model for a restored tooth based on CT images and (ii) conducting stress analysis of the restored tooth using the 3D FE model established. To build up a solid computational model of a tooth, a method has been proposed to construct a 3D model from 2D CT-scanned images. Facilitated with CAD tools, the 3D tooth model has been virtually incorporated with a Class II MO restoration. The tooth model is triphasic, including the enamel, dentin, and pulp phases. To mimic the natural constraint on the movement of the tooth model, its corresponding mandible model has also been generated. The relative high maximum principal stress values were computed at the surface under loading and in the marginal region of the interface between the restoration and the tooth phases. PMID:22844287

  9. Morphologic Interpretation of Rock Failure Mechanisms Under Uniaxial Compression Based on 3D Multiscale High-resolution Numerical Modeling

    NASA Astrophysics Data System (ADS)

    Li, Gen; Liang, Zheng-Zhao; Tang, Chun-An

    2015-11-01

    Multiscale continuous lab oratory observation of the progressive failure process has become a powerful means to reveal the complex failure mechanism of rock. Correspondingly, the representative volume element (RVE)-based models, which are capable of micro/meso- to macro-scale simulations, have been proposed, for instance, the rock failure process analysis (RFPA) program. Limited by the computational bottleneck due to the RVE size, multiscale high-resolution modeling of rock failure process can hardly be implemented, especially for three-dimensional (3D) problems. In this paper, the self-developed parallel RFPA3D code is employed to investigate the failure mechanisms and various fracture morphology of laboratory-scale rectangular prism rock specimens under unconfined uniaxial compression. The specimens consist of either heterogeneous rock with low strength or relatively homogeneous rock with high strength. The numerical simulations, such as the macroscopic fracture pattern and stress-strain responses, can reproduce the well-known phenomena of physical experiments. In particular, the 3D multiscale continuum modeling is carried out to gain new insight into the morphologic interpretation of brittle failure mechanisms, which is calibrated and validated by comparing the actual laboratory experiments and field evidence. The advantages of 3D multiscale high-resolution modeling are demonstrated by comparing the failure modes against 2D numerical predictions by other models. The parallel RVE-based modeling tool in this paper can provide an alternative way to investigate the complicated failure mechanisms of rock.

  10. Research on 3D virtual campus scene modeling based on 3ds Max and VRML

    NASA Astrophysics Data System (ADS)

    Kang, Chuanli; Zhou, Yanliu; Liang, Xianyue

    2015-12-01

    With the rapid development of modem technology, the digital information management and the virtual reality simulation technology has become a research hotspot. Virtual campus 3D model can not only express the real world objects of natural, real and vivid, and can expand the campus of the reality of time and space dimension, the combination of school environment and information. This paper mainly uses 3ds Max technology to create three-dimensional model of building and on campus buildings, special land etc. And then, the dynamic interactive function is realized by programming the object model in 3ds Max by VRML .This research focus on virtual campus scene modeling technology and VRML Scene Design, and the scene design process in a variety of real-time processing technology optimization strategy. This paper guarantees texture map image quality and improve the running speed of image texture mapping. According to the features and architecture of Guilin University of Technology, 3ds Max, AutoCAD and VRML were used to model the different objects of the virtual campus. Finally, the result of virtual campus scene is summarized.

  11. A spheroid-based 3-D culture model for pancreatic cancer drug testing, using the acid phosphatase assay.

    PubMed

    Wen, Z; Liao, Q; Hu, Y; You, L; Zhou, L; Zhao, Y

    2013-07-01

    Current therapy for pancreatic cancer is multimodal, involving surgery and chemotherapy. However, development of pancreatic cancer therapies requires a thorough evaluation of drug efficacy in vitro before animal testing and subsequent clinical trials. Compared to two-dimensional culture of cell monolayer, three-dimensional (3-D) models more closely mimic native tissues, since the tumor microenvironment established in 3-D models often plays a significant role in cancer progression and cellular responses to the drugs. Accumulating evidence has highlighted the benefits of 3-D in vitro models of various cancers. In the present study, we have developed a spheroid-based, 3-D culture of pancreatic cancer cell lines MIAPaCa-2 and PANC-1 for pancreatic drug testing, using the acid phosphatase assay. Drug efficacy testing showed that spheroids had much higher drug resistance than monolayers. This model, which is characteristically reproducible and easy and offers rapid handling, is the preferred choice for filling the gap between monolayer cell cultures and in vivo models in the process of drug development and testing for pancreatic cancer.

  12. SU-E-J-01: 3D Fluoroscopic Image Estimation From Patient-Specific 4DCBCT-Based Motion Models

    SciTech Connect

    Dhou, S; Hurwitz, M; Lewis, J; Mishra, P

    2014-06-01

    Purpose: 3D motion modeling derived from 4DCT images, taken days or weeks before treatment, cannot reliably represent patient anatomy on the day of treatment. We develop a method to generate motion models based on 4DCBCT acquired at the time of treatment, and apply the model to estimate 3D time-varying images (referred to as 3D fluoroscopic images). Methods: Motion models are derived through deformable registration between each 4DCBCT phase, and principal component analysis (PCA) on the resulting displacement vector fields. 3D fluoroscopic images are estimated based on cone-beam projections simulating kV treatment imaging. PCA coefficients are optimized iteratively through comparison of these cone-beam projections and projections estimated based on the motion model. Digital phantoms reproducing ten patient motion trajectories, and a physical phantom with regular and irregular motion derived from measured patient trajectories, are used to evaluate the method in terms of tumor localization, and the global voxel intensity difference compared to ground truth. Results: Experiments included: 1) assuming no anatomic or positioning changes between 4DCT and treatment time; and 2) simulating positioning and tumor baseline shifts at the time of treatment compared to 4DCT acquisition. 4DCBCT were reconstructed from the anatomy as seen at treatment time. In case 1) the tumor localization error and the intensity differences in ten patient were smaller using 4DCT-based motion model, possible due to superior image quality. In case 2) the tumor localization error and intensity differences were 2.85 and 0.15 respectively, using 4DCT-based motion models, and 1.17 and 0.10 using 4DCBCT-based models. 4DCBCT performed better due to its ability to reproduce daily anatomical changes. Conclusion: The study showed an advantage of 4DCBCT-based motion models in the context of 3D fluoroscopic images estimation. Positioning and tumor baseline shift uncertainties were mitigated by the 4DCBCT-based

  13. Toward real-time endoscopically-guided robotic navigation based on a 3D virtual surgical field model

    NASA Astrophysics Data System (ADS)

    Gong, Yuanzheng; Hu, Danying; Hannaford, Blake; Seibel, Eric J.

    2015-03-01

    The challenge is to accurately guide the surgical tool within the three-dimensional (3D) surgical field for roboticallyassisted operations such as tumor margin removal from a debulked brain tumor cavity. The proposed technique is 3D image-guided surgical navigation based on matching intraoperative video frames to a 3D virtual model of the surgical field. A small laser-scanning endoscopic camera was attached to a mock minimally-invasive surgical tool that was manipulated toward a region of interest (residual tumor) within a phantom of a debulked brain tumor. Video frames from the endoscope provided features that were matched to the 3D virtual model, which were reconstructed earlier by raster scanning over the surgical field. Camera pose (position and orientation) is recovered by implementing a constrained bundle adjustment algorithm. Navigational error during the approach to fluorescence target (residual tumor) is determined by comparing the calculated camera pose to the measured camera pose using a micro-positioning stage. From these preliminary results, computation efficiency of the algorithm in MATLAB code is near real-time (2.5 sec for each estimation of pose), which can be improved by implementation in C++. Error analysis produced 3-mm distance error and 2.5 degree of orientation error on average. The sources of these errors come from 1) inaccuracy of the 3D virtual model, generated on a calibrated RAVEN robotic platform with stereo tracking; 2) inaccuracy of endoscope intrinsic parameters, such as focal length; and 3) any endoscopic image distortion from scanning irregularities. This work demonstrates feasibility of micro-camera 3D guidance of a robotic surgical tool.

  14. Vision-based building energy diagnostics and retrofit analysis using 3D thermography and building information modeling

    NASA Astrophysics Data System (ADS)

    Ham, Youngjib

    localization issues of 2D thermal image-based inspection, a new computer vision-based method is presented for automated 3D spatio-thermal modeling of building environments from images and localizing the thermal images into the 3D reconstructed scenes, which helps better characterize the as-is condition of existing buildings in 3D. By using these models, auditors can conduct virtual walk-through in buildings and explore the as-is condition of building geometry and the associated thermal conditions in 3D. Second, to address the challenges in qualitative and subjective interpretation of visual data, a new model-based method is presented to convert the 3D thermal profiles of building environments into their associated energy performance metrics. More specifically, the Energy Performance Augmented Reality (EPAR) models are formed which integrate the actual 3D spatio-thermal models ('as-is') with energy performance benchmarks ('as-designed') in 3D. In the EPAR models, the presence and location of potential energy problems in building environments are inferred based on performance deviations. The as-is thermal resistances of the building assemblies are also calculated at the level of mesh vertex in 3D. Then, based on the historical weather data reflecting energy load for space conditioning, the amount of heat transfer that can be saved by improving the as-is thermal resistances of the defective areas to the recommended level is calculated, and the equivalent energy cost for this saving is estimated. The outcome provides building practitioners with unique information that can facilitate energy efficient retrofit decision-makings. This is a major departure from offhand calculations that are based on historical cost data of industry best practices. Finally, to improve the reliability of BIM-based energy performance modeling and analysis for existing buildings, a new model-based automated method is presented to map actual thermal resistance measurements at the level of 3D vertexes to the

  15. 3D Discontinuous Galerkin elastic seismic wave modeling based upon a grid injection method

    NASA Astrophysics Data System (ADS)

    Monteiller, V.

    2015-12-01

    Full waveform inversion (FWI) is a seismic imaging method that estimates thesub-surface physical properties with a spatial resolution of the order of thewavelength. FWI is generally recast as the iterative optimization of anobjective function that measures the distance between modeled and recordeddata. In the framework of local descent methods, FWI requires to perform atleast two seismic modelings per source and per FWI iteration.Due to the resulting computational burden, applications of elastic FWI have been usuallyrestricted to 2D geometries. Despite the continuous growth of high-performancecomputing facilities, application of 3D elastic FWI to real-scale problemsremain computationally too expensive. To perform elastic seismic modeling with a reasonable amount of time, weconsider a reduced computational domain embedded in a larger background modelin which seismic sources are located. Our aim is to compute repeatedly thefull wavefield in the targeted domain after model alteration, once theincident wavefield has been computed once for all in the background model. Toachieve this goal, we use a grid injection method referred to as the Total-Field/Scattered-Field (TF/SF) technique in theelectromagnetic community. We implemented the Total-Field/Scattered-Field approach in theDiscontinuous Galerkin Finite Element method (DG-FEM) that is used to performmodeling in the local domain. We show how to interface the DG-FEM with any modeling engine (analytical solution, finite difference or finite elements methods) that is suitable for the background simulation. One advantage of the Total-Field/Scattered-Field approach is related to thefact that the scattered wavefield instead of the full wavefield enter thePMLs, hence making more efficient the absorption of the outgoing waves at theouter edges of the computational domain. The domain reduction in which theDG-FEM is applied allows us to use modest computational resources opening theway for high-resolution imaging by full

  16. Generation and Comparison of Tls and SFM Based 3d Models of Solid Shapes in Hydromechanic Research

    NASA Astrophysics Data System (ADS)

    Zhang, R.; Schneider, D.; Strauß, B.

    2016-06-01

    The aim of a current study at the Institute of Hydraulic Engineering and Technical Hydromechanics at TU Dresden is to develop a new injection method for quick and economic sealing of dikes or dike bodies, based on a new synthetic material. To validate the technique, an artificial part of a sand dike was built in an experimental hall. The synthetic material was injected, which afterwards spreads in the inside of the dike. After the material was fully solidified, the surrounding sand was removed with an excavator. In this paper, two methods, which applied terrestrial laser scanning (TLS) and structure from motion (SfM) respectively, for the acquisition of a 3D point cloud of the remaining shapes are described and compared. Combining with advanced software packages, a triangulated 3D model was generated and subsequently the volume of vertical sections of the shape were calculated. As the calculation of the volume revealed differences between the TLS and the SfM 3D model, a thorough qualitative comparison of the two models will be presented as well as a detailed accuracy assessment. The main influence of the accuracy is caused by generalisation in case of gaps due to occlusions in the 3D point cloud. Therefore, improvements for the data acquisition with TLS and SfM for such kind of objects are suggested in the paper.

  17. Evolution of Archaea in 3D modeling

    NASA Astrophysics Data System (ADS)

    Pikuta, Elena V.; Tankosic, Dragana; Sheldon, Rob

    2012-11-01

    The analysis of all groups of Archaea performed in two-dimensions have demonstrated a specific distribution of Archaean species as a function of pH/temperature, temperature/salinity and pH/salinity. Work presented here is an extension of this analysis with a three dimensional (3D) modeling in logarithmic scale. As it was shown in 2D representation, the "Rules of the Diagonal" have been expressed even more clearly in 3D modeling. In this article, we used a 3D Mesh modeling to show the range of distribution of each separate group of Archaea as a function of pH, temperature, and salinity. Visible overlap and links between different groups indicate a direction of evolution in Archaea. The major direction in ancestral life (vector of evolution) has been indicated: from high temperature, acidic, and low-salinity system towards low temperature, alkaline and high salinity systems. Specifics of the geometrical coordinates and distribution of separate groups of Archaea in 3 D scale were analyzed with a mathematical description of the functions. Based on the obtained data, a new model for the origin and evolution of life on Earth is proposed. The geometry of this model is described by a hyperboloid of one sheet. Conclusions of this research are consistent with previous results derived from the two-dimensional diagrams. This approach is suggested as a new method for analyzing any biological group in accordance to its environmental parameters.

  18. Identification of potential influenza virus endonuclease inhibitors through virtual screening based on the 3D-QSAR model.

    PubMed

    Kim, J; Lee, C; Chong, Y

    2009-01-01

    Influenza endonucleases have appeared as an attractive target of antiviral therapy for influenza infection. With the purpose of designing a novel antiviral agent with enhanced biological activities against influenza endonuclease, a three-dimensional quantitative structure-activity relationships (3D-QSAR) model was generated based on 34 influenza endonuclease inhibitors. The comparative molecular similarity index analysis (CoMSIA) with a steric, electrostatic and hydrophobic (SEH) model showed the best correlative and predictive capability (q(2) = 0.763, r(2) = 0.969 and F = 174.785), which provided a pharmacophore composed of the electronegative moiety as well as the bulky hydrophobic group. The CoMSIA model was used as a pharmacophore query in the UNITY search of the ChemDiv compound library to give virtual active compounds. The 3D-QSAR model was then used to predict the activity of the selected compounds, which identified three compounds as the most likely inhibitor candidates.

  19. Debris Dispersion Model Using Java 3D

    NASA Technical Reports Server (NTRS)

    Thirumalainambi, Rajkumar; Bardina, Jorge

    2004-01-01

    This paper describes web based simulation of Shuttle launch operations and debris dispersion. Java 3D graphics provides geometric and visual content with suitable mathematical model and behaviors of Shuttle launch. Because the model is so heterogeneous and interrelated with various factors, 3D graphics combined with physical models provides mechanisms to understand the complexity of launch and range operations. The main focus in the modeling and simulation covers orbital dynamics and range safety. Range safety areas include destruct limit lines, telemetry and tracking and population risk near range. If there is an explosion of Shuttle during launch, debris dispersion is explained. The shuttle launch and range operations in this paper are discussed based on the operations from Kennedy Space Center, Florida, USA.

  20. Machining Error Compensation Based on 3D Surface Model Modified by Measured Accuracy

    NASA Astrophysics Data System (ADS)

    Abe, Go; Aritoshi, Masatoshi; Tomita, Tomoki; Shirase, Keiichi

    Recently, a demand for precision machining of dies and molds with complex shapes has been increasing. Although CNC machine tools are utilized widely for machining, still machining error compensation is required to meet the increasing demand of machining accuracy. However, the machining error compensation is an operation which takes huge amount of skill, time and cost. This paper deals with a new method of the machining error compensation. The 3D surface data of the machined part is modified according to the machining error measured by CMM (Coordinate Measuring Machine). A compensated NC program is generated from the modified 3D surface data for the machining error compensation.

  1. A cone-beam CT based technique to augment the 3D virtual skull model with a detailed dental surface.

    PubMed

    Swennen, G R J; Mommaerts, M Y; Abeloos, J; De Clercq, C; Lamoral, P; Neyt, N; Casselman, J; Schutyser, F

    2009-01-01

    Cone-beam computed tomography (CBCT) is used for maxillofacial imaging. 3D virtual planning of orthognathic and facial orthomorphic surgery requires detailed visualisation of the interocclusal relationship. This study aimed to introduce and evaluate the use of a double CBCT scan procedure with a modified wax bite wafer to augment the 3D virtual skull model with a detailed dental surface. The impressions of the dental arches and the wax bite wafer were scanned for ten patient separately using a high resolution standardized CBCT scanning protocol. Surface-based rigid registration using ICP (iterative closest points) was used to fit the virtual models on the wax bite wafer. Automatic rigid point-based registration of the wax bite wafer on the patient scan was performed to implement the digital virtual dental arches into the patient's skull model. Probability error histograms showed errors of < or =0.22 mm (25% percentile), < or =0.44 mm (50% percentile) and < or =1.09 mm (90% percentile) for ICP surface matching. The mean registration error for automatic point-based rigid registration was 0.18+/-0.10 mm (range 0.13-0.26 mm). The results show the potential for a double CBCT scan procedure with a modified wax bite wafer to set-up a 3D virtual augmented model of the skull with detailed dental surface.

  2. 3D controlled-source electromagnetic modeling in anisotropic medium using edge-based finite element method

    NASA Astrophysics Data System (ADS)

    Cai, Hongzhu; Xiong, Bin; Han, Muran; Zhdanov, Michael

    2014-12-01

    This paper presents a linear edge-based finite element method for numerical modeling of 3D controlled-source electromagnetic data in an anisotropic conductive medium. We use a nonuniform rectangular mesh in order to capture the rapid change of diffusive electromagnetic field within the regions of anomalous conductivity and close to the location of the source. In order to avoid the source singularity, we solve Maxwell's equation with respect to anomalous electric field. The nonuniform rectangular mesh can be transformed to hexahedral mesh in order to simulate the bathymetry effect. The sparse system of finite element equations is solved using a quasi-minimum residual method with a Jacobian preconditioner. We have applied the developed algorithm to compute a typical MCSEM response over a 3D model of a hydrocarbon reservoir located in both isotropic and anisotropic mediums. The modeling results are in a good agreement with the solutions obtained by the integral equation method.

  3. A semi-automatic image-based close range 3D modeling pipeline using a multi-camera configuration.

    PubMed

    Rau, Jiann-Yeou; Yeh, Po-Chia

    2012-01-01

    The generation of photo-realistic 3D models is an important task for digital recording of cultural heritage objects. This study proposes an image-based 3D modeling pipeline which takes advantage of a multi-camera configuration and multi-image matching technique that does not require any markers on or around the object. Multiple digital single lens reflex (DSLR) cameras are adopted and fixed with invariant relative orientations. Instead of photo-triangulation after image acquisition, calibration is performed to estimate the exterior orientation parameters of the multi-camera configuration which can be processed fully automatically using coded targets. The calibrated orientation parameters of all cameras are applied to images taken using the same camera configuration. This means that when performing multi-image matching for surface point cloud generation, the orientation parameters will remain the same as the calibrated results, even when the target has changed. Base on this invariant character, the whole 3D modeling pipeline can be performed completely automatically, once the whole system has been calibrated and the software was seamlessly integrated. Several experiments were conducted to prove the feasibility of the proposed system. Images observed include that of a human being, eight Buddhist statues, and a stone sculpture. The results for the stone sculpture, obtained with several multi-camera configurations were compared with a reference model acquired by an ATOS-I 2M active scanner. The best result has an absolute accuracy of 0.26 mm and a relative accuracy of 1:17,333. It demonstrates the feasibility of the proposed low-cost image-based 3D modeling pipeline and its applicability to a large quantity of antiques stored in a museum. PMID:23112656

  4. A semi-automatic image-based close range 3D modeling pipeline using a multi-camera configuration.

    PubMed

    Rau, Jiann-Yeou; Yeh, Po-Chia

    2012-01-01

    The generation of photo-realistic 3D models is an important task for digital recording of cultural heritage objects. This study proposes an image-based 3D modeling pipeline which takes advantage of a multi-camera configuration and multi-image matching technique that does not require any markers on or around the object. Multiple digital single lens reflex (DSLR) cameras are adopted and fixed with invariant relative orientations. Instead of photo-triangulation after image acquisition, calibration is performed to estimate the exterior orientation parameters of the multi-camera configuration which can be processed fully automatically using coded targets. The calibrated orientation parameters of all cameras are applied to images taken using the same camera configuration. This means that when performing multi-image matching for surface point cloud generation, the orientation parameters will remain the same as the calibrated results, even when the target has changed. Base on this invariant character, the whole 3D modeling pipeline can be performed completely automatically, once the whole system has been calibrated and the software was seamlessly integrated. Several experiments were conducted to prove the feasibility of the proposed system. Images observed include that of a human being, eight Buddhist statues, and a stone sculpture. The results for the stone sculpture, obtained with several multi-camera configurations were compared with a reference model acquired by an ATOS-I 2M active scanner. The best result has an absolute accuracy of 0.26 mm and a relative accuracy of 1:17,333. It demonstrates the feasibility of the proposed low-cost image-based 3D modeling pipeline and its applicability to a large quantity of antiques stored in a museum.

  5. An LS-MARS method for modeling regional 3D ionospheric electron density based on GPS data and IRI

    NASA Astrophysics Data System (ADS)

    Kao, Szu-Pyng; Chen, Yao-Chung; Ning, Fang-Shii; Tu, Yuh-Min

    2015-05-01

    The methods of developing an accurate and effective ionospheric electron density (IED) model have greatly interested ionosphere researchers. Numerous scholars have proposed many effective and reliable models and methods of global positioning system (GPS)-based computerized ionospheric tomography (CIT) in the past decades. This study introduced a new function-based CIT method, namely the LS-MARS (Least Squares method-Multivariate Adaptive Regression Splines), combining MARS with IEDs calculated by International Reference Ionosphere (IRI) to automatically choose the best representing basis functions for the three-dimensional (3D) electron density inside that modeling area. This selected basis functions was substituted into the observation equation of the GPS total electron content (TEC) to calculate the design matrix. Finally, the weighted damped least squares (WDLS) were adopted to reestimate the IED model coefficients. In contrast to common function-based CIT methods, the LS-MARS can be used to attain optimal 3D model automatically, flexibly, adaptively based on the IRI without a priori knowledge of the IED distribution mathematical function. The findings indicated that the LS-MARS model had a smaller recovery TEC error than did the MARS_IRI2012 model, and the VTEC calculated using the LS-MARS model was closer to the VTEC obtained from International GNSS Service (IGS) final IONEX files than was the VTEC calculated using the MARS_IRI2012 and IRI2012. Therefore, this method exhibits strong modeling effectiveness and reliability, and can be an efficient alternative method for estimating regional 3D IED models.

  6. Design and Implementation of 3D Model Data Management System Based on SQL

    NASA Astrophysics Data System (ADS)

    Li, Shitao; Zhang, Shixin; Zhang, Zhanling; Li, Shiming; Jia, Kun; Hu, Zhongxu; Ping, Liang; Hu, Youming; Li, Yanlei

    CAD/CAM technology plays an increasingly important role in the machinery manufacturing industry. As an important means of production, the accumulated three-dimensional models in many years of design work are valuable. Thus the management of these three-dimensional models is of great significance. This paper gives detailed explanation for a method to design three-dimensional model databases based on SQL and to implement the functions such as insertion, modification, inquiry, preview and so on.

  7. 3D printing of high-resolution PLA-based structures by hybrid electrohydrodynamic and fused deposition modeling techniques

    NASA Astrophysics Data System (ADS)

    Zhang, Bin; Seong, Baekhoon; Nguyen, VuDat; Byun, Doyoung

    2016-02-01

    Recently, the three-dimensional (3D) printing technique has received much attention for shape forming and manufacturing. The fused deposition modeling (FDM) printer is one of the various 3D printers available and has become widely used due to its simplicity, low-cost, and easy operation. However, the FDM technique has a limitation whereby its patterning resolution is too low at around 200 μm. In this paper, we first present a hybrid mechanism of electrohydrodynamic jet printing with the FDM technique, which we name E-FDM. We then develop a novel high-resolution 3D printer based on the E-FDM process. To determine the optimal condition for structuring, we also investigated the effect of several printing parameters, such as temperature, applied voltage, working height, printing speed, flow-rate, and acceleration on the patterning results. This method was capable of fabricating both high resolution 2D and 3D structures with the use of polylactic acid (PLA). PLA has been used to fabricate scaffold structures for tissue engineering, which has different hierarchical structure sizes. The fabrication speed was up to 40 mm/s and the pattern resolution could be improved to 10 μm.

  8. Target specific delivery of anticancer drug in silk fibroin based 3D distribution model of bone-breast cancer cells.

    PubMed

    Subia, Bano; Dey, Tuli; Sharma, Shaily; Kundu, Subhas C

    2015-02-01

    To avoid the indiscriminating action of anticancer drugs, the cancer cell specific targeting of drug molecule becomes a preferred choice for the treatment. The successful screening of the drug molecules in 2D culture system requires further validation. The failure of target specific drug in animal model raises the issue of creating a platform in between the in vitro (2D) and in vivo animal testing. The metastatic breast cancer cells migrate and settle at different sites such as bone tissue. This work evaluates the in vitro 3D model of the breast cancer and bone cells to understand the cellular interactions in the presence of a targeted anticancer drug delivery system. The silk fibroin based cytocompatible 3D scaffold is used as in vitro 3D distribution model. Human breast adenocarcinoma and osteoblast like cells are cocultured to evaluate the efficiency of doxorubicin loaded folic acid conjugated silk fibroin nanoparticle as drug delivery system. Decreasing population of the cancer cells, which lower the levels of vascular endothelial growth factors, glucose consumption, and lactate production are observed in the drug treated coculture constructs. The drug treated constructs do not show any major impact on bone mineralization. The diminished expression of osteogenic markers such as osteocalcein and alkaline phosphatase are recorded. The result indicates that this type of silk based 3D in vitro coculture model may be utilized as a bridge between the traditional 2D and animal model system to evaluate the new drug molecule (s) or to reassay the known drug molecules or to develop target specific drug in cancer research. PMID:25557227

  9. Target specific delivery of anticancer drug in silk fibroin based 3D distribution model of bone-breast cancer cells.

    PubMed

    Subia, Bano; Dey, Tuli; Sharma, Shaily; Kundu, Subhas C

    2015-02-01

    To avoid the indiscriminating action of anticancer drugs, the cancer cell specific targeting of drug molecule becomes a preferred choice for the treatment. The successful screening of the drug molecules in 2D culture system requires further validation. The failure of target specific drug in animal model raises the issue of creating a platform in between the in vitro (2D) and in vivo animal testing. The metastatic breast cancer cells migrate and settle at different sites such as bone tissue. This work evaluates the in vitro 3D model of the breast cancer and bone cells to understand the cellular interactions in the presence of a targeted anticancer drug delivery system. The silk fibroin based cytocompatible 3D scaffold is used as in vitro 3D distribution model. Human breast adenocarcinoma and osteoblast like cells are cocultured to evaluate the efficiency of doxorubicin loaded folic acid conjugated silk fibroin nanoparticle as drug delivery system. Decreasing population of the cancer cells, which lower the levels of vascular endothelial growth factors, glucose consumption, and lactate production are observed in the drug treated coculture constructs. The drug treated constructs do not show any major impact on bone mineralization. The diminished expression of osteogenic markers such as osteocalcein and alkaline phosphatase are recorded. The result indicates that this type of silk based 3D in vitro coculture model may be utilized as a bridge between the traditional 2D and animal model system to evaluate the new drug molecule (s) or to reassay the known drug molecules or to develop target specific drug in cancer research.

  10. Human Lumbar Ligamentum Flavum Anatomy for Epidural Anesthesia: Reviewing a 3D MR-Based Interactive Model and Postmortem Samples.

    PubMed

    Reina, Miguel A; Lirk, Philipp; Puigdellívol-Sánchez, Anna; Mavar, Marija; Prats-Galino, Alberto

    2016-03-01

    The ligamentum flavum (LF) forms the anatomic basis for the loss-of-resistance technique essential to the performance of epidural anesthesia. However, the LF presents considerable interindividual variability, including the possibility of midline gaps, which may influence the performance of epidural anesthesia. We devise a method to reconstruct the anatomy of the digitally LF based on magnetic resonance images to clarify the exact limits and edges of LF and its different thickness, depending on the area examined, while avoiding destructive methods, as well as the dissection processes. Anatomic cadaveric cross sections enabled us to visually check the definition of the edges along the entire LF and compare them using 3D image reconstruction methods. Reconstruction was performed in images obtained from 7 patients. Images from 1 patient were used as a basis for the 3D spinal anatomy tool. In parallel, axial cuts, 2 to 3 cm thick, were performed in lumbar spines of 4 frozen cadavers. This technique allowed us to identify the entire ligament and its exact limits, while avoiding alterations resulting from cutting processes or from preparation methods. The LF extended between the laminas of adjacent vertebrae at all vertebral levels of the patients examined, but midline gaps are regularly encountered. These anatomical variants were reproduced in a 3D portable document format. The major anatomical features of the LF were reproduced in the 3D model. Details of its structure and variations of thickness in successive sagittal and axial slides could be visualized. Gaps within LF previously studied in cadavers have been identified in our interactive 3D model, which may help to understand their nature, as well as possible implications for epidural techniques.

  11. Human Lumbar Ligamentum Flavum Anatomy for Epidural Anesthesia: Reviewing a 3D MR-Based Interactive Model and Postmortem Samples.

    PubMed

    Reina, Miguel A; Lirk, Philipp; Puigdellívol-Sánchez, Anna; Mavar, Marija; Prats-Galino, Alberto

    2016-03-01

    The ligamentum flavum (LF) forms the anatomic basis for the loss-of-resistance technique essential to the performance of epidural anesthesia. However, the LF presents considerable interindividual variability, including the possibility of midline gaps, which may influence the performance of epidural anesthesia. We devise a method to reconstruct the anatomy of the digitally LF based on magnetic resonance images to clarify the exact limits and edges of LF and its different thickness, depending on the area examined, while avoiding destructive methods, as well as the dissection processes. Anatomic cadaveric cross sections enabled us to visually check the definition of the edges along the entire LF and compare them using 3D image reconstruction methods. Reconstruction was performed in images obtained from 7 patients. Images from 1 patient were used as a basis for the 3D spinal anatomy tool. In parallel, axial cuts, 2 to 3 cm thick, were performed in lumbar spines of 4 frozen cadavers. This technique allowed us to identify the entire ligament and its exact limits, while avoiding alterations resulting from cutting processes or from preparation methods. The LF extended between the laminas of adjacent vertebrae at all vertebral levels of the patients examined, but midline gaps are regularly encountered. These anatomical variants were reproduced in a 3D portable document format. The major anatomical features of the LF were reproduced in the 3D model. Details of its structure and variations of thickness in successive sagittal and axial slides could be visualized. Gaps within LF previously studied in cadavers have been identified in our interactive 3D model, which may help to understand their nature, as well as possible implications for epidural techniques. PMID:26891398

  12. Augmenting ViSP's 3D Model-Based Tracker with RGB-D SLAM for 3D Pose Estimation in Indoor Environments

    NASA Astrophysics Data System (ADS)

    Li-Chee-Ming, J.; Armenakis, C.

    2016-06-01

    This paper presents a novel application of the Visual Servoing Platform's (ViSP) for pose estimation in indoor and GPS-denied outdoor environments. Our proposed solution integrates the trajectory solution from RGBD-SLAM into ViSP's pose estimation process. Li-Chee-Ming and Armenakis (2015) explored the application of ViSP in mapping large outdoor environments, and tracking larger objects (i.e., building models). Their experiments revealed that tracking was often lost due to a lack of model features in the camera's field of view, and also because of rapid camera motion. Further, the pose estimate was often biased due to incorrect feature matches. This work proposes a solution to improve ViSP's pose estimation performance, aiming specifically to reduce the frequency of tracking losses and reduce the biases present in the pose estimate. This paper explores the integration of ViSP with RGB-D SLAM. We discuss the performance of the combined tracker in mapping indoor environments and tracking 3D wireframe indoor building models, and present preliminary results from our experiments.

  13. A new 3-D thin-skinned rock glacier model based on helicopter GPR results from the Swiss Alps

    NASA Astrophysics Data System (ADS)

    Merz, Kaspar; Green, Alan G.; Buchli, Thomas; Springman, Sarah M.; Maurer, Hansruedi

    2015-06-01

    Mountainous locations and steep rugged surfaces covered by boulders and other loose debris are the main reasons why rock glaciers are among the most challenging geological features to investigate using ground-based geophysical methods. Consequently, geophysical surveys of rock glaciers have only ever involved recording data along sparse lines. To address this issue, we acquired quasi-3-D ground-penetrating radar (GPR) data across a rock glacier in the Swiss Alps using a helicopter-mounted system. Our interpretation of the derived GPR images constrained by borehole information results in a novel "thin-skinned" rock glacier model that explains a concentration of deformation across a principal shear zone (décollement) and faults across which rock glacier lobes are juxtaposed. The new model may be applicable to many rock glaciers worldwide. We suggest that the helicopter GPR method may be useful for 3-D surveying numerous other difficult-to-access mountainous terrains.

  14. 3D building reconstruction based on given ground plan information and surface models extracted from spaceborne imagery

    NASA Astrophysics Data System (ADS)

    Tack, Frederik; Buyuksalih, Gurcan; Goossens, Rudi

    2012-01-01

    3D surface models have gained field as an important tool for urban planning and mapping. However, urban environments have a complex nature to model and they provide a challenge to investigate the current limits of automatic digital surface modeling from high resolution satellite imagery. An approach is introduced to improve a 3D surface model, extracted photogrammetrically from satellite imagery, based on the geometric building information embodied in existing 2D ground plans. First buildings are clipped from the extracted DSM based on the 2D polygonal building ground plans. To generate prismatic shaped structures with vertical walls and flat roofs, building shape is retrieved from the cadastre database while elevation information is extracted from the DSM. Within each 2D building boundary, a constant roof height is extracted based on statistical calculations of the height values. After buildings are extracted from the initial surface model, the remaining DSM is further processed to simplify to a smooth DTM that reflects bare ground, without artifacts, local relief, vegetation, cars and city furniture. In a next phase, both models are merged to yield an integrated city model or generalized DSM. The accuracy of the generalized surface model is assessed according to a quantitative-statistical analysis by comparison with two different types of reference data.

  15. Model-based 3-D segmentation of multiple sclerosis lesions in dual-echo MRI data

    NASA Astrophysics Data System (ADS)

    Kamber, Micheline; Collins, D. Louis; Shinghal, Rajjan; Francis, G. S.; Evans, Alan C.

    1992-09-01

    This paper describes the development and use of a brain tissue probability model for the segmentation of multiple sclerosis lesions in magnetic resonance (MR) images of the human brain. Based on MR data obtained from a group of healthy volunteers, the model was constructed to provide prior probabilities of grey matter, white matter, ventricular cerebrospinal fluid (CSF), and external CSF distribution per unit voxel in a standardized 3- dimensional `brain space.' In comparison to purely data-driven segmentation, the use of the model to guide the segmentation of multiple sclerosis lesions reduced the volume of false positive lesions by 50%.

  16. Visualisation of Complex 3d City Models on Mobile Webbrowsers Using Cloud-Based Image Provisioning

    NASA Astrophysics Data System (ADS)

    Christen, M.; Nebiker, S.

    2015-08-01

    Rendering large city models with high polygon count and a vast amount of textures at interactive frame rates is a rather difficult to impossible task as it highly depends on the client hardware, which is often insufficient, even if out-of-core rendering techniques and level of detail approaches are used. Rendering complex city models on mobile devices is even more challenging. An approach of rendering and caching very large city models in the cloud using ray-tracing based image provisioning is introduced. This allows rendering large scenes efficiently, including on mobile devices. With this approach, it is possible to render cities with nearly unlimited number of polygons and textures.

  17. Fusion of 3D models derived from TLS and image-based techniques for CH enhanced documentation

    NASA Astrophysics Data System (ADS)

    Bastonero, P.; Donadio, E.; Chiabrando, F.; Spanò, A.

    2014-05-01

    Recognizing the various advantages offered by 3D new metric survey technologies in the Cultural Heritage documentation phase, this paper presents some tests of 3D model generation, using different methods, and their possible fusion. With the aim to define potentialities and problems deriving from integration or fusion of metric data acquired with different survey techniques, the elected test case is an outstanding Cultural Heritage item, presenting both widespread and specific complexities connected to the conservation of historical buildings. The site is the Staffarda Abbey, the most relevant evidence of medieval architecture in Piedmont. This application faced one of the most topical architectural issues consisting in the opportunity to study and analyze an object as a whole, from twice location of acquisition sensors, both the terrestrial and the aerial one. In particular, the work consists in the evaluation of chances deriving from a simple union or from the fusion of different 3D cloudmodels of the abbey, achieved by multi-sensor techniques. The aerial survey is based on a photogrammetric RPAS (Remotely piloted aircraft system) flight while the terrestrial acquisition have been fulfilled by laser scanning survey. Both techniques allowed to extract and process different point clouds and to generate consequent 3D continuous models which are characterized by different scale, that is to say different resolutions and diverse contents of details and precisions. Starting from these models, the proposed process, applied to a sample area of the building, aimed to test the generation of a unique 3Dmodel thorough a fusion of different sensor point clouds. Surely, the describing potential and the metric and thematic gains feasible by the final model exceeded those offered by the two detached models.

  18. Use of Physics-Based Models in the Determination of POD for 3D Defects

    NASA Astrophysics Data System (ADS)

    Thompson, R. Bruce

    2005-04-01

    Motivated by the desire to reduce the time and costs and to improve the accuracy of POD studies, there is an increasing interest in incorporating information from physics-based models of flaw response. This paper will concentrate on the case of internal defects. As compared to surface-breaking fatigue cracks, internal defects, generally inclusions or voids, have a 3-dimensional shape and are hard to simulate in simple fabricated reference samples. Hence, empirical studies pose many problems. This paper will summarize experiences in the development of Model-Assisted POD predictions. After an introduction to some of the fundamental issues, an approach of Model-Assisted POD determination will be introduced, supported by experience obtained in applications to the ultrasonic inspection of aircraft engine components and welds in pipelines. Attention will be paid to the interplay of information provided by the physics-based models and empirical measurements. Of particular importance for internal defects are the effects of flaw morphology and orientation, information that can significantly affect signal strength. Examples will be given regarding how models can be used to understand and quantify these effects. A distinction is noted between the POD that would be obtained in survey and characterization modes, and the importance of models in interpreting multiple pieces of information in the latter case is emphasized.

  19. A 3-D elasticity theory based model for acoustic radiation from multilayered anisotropic plates.

    PubMed

    Shen, C; Xin, F X; Lu, T J

    2014-05-01

    A theoretical model built upon three-dimensional elasticity theory is developed to investigate the acoustic radiation from multilayered anisotropic plates subjected to a harmonic point force excitation. Fourier transform technique and stationary phase method are combined to predict the far-field radiated sound pressure of one-side water immersed plate. Compared to equivalent single-layer plate models, the present model based on elasticity theory can differentiate radiated sound pressure between dry-side and wet-side excited cases, as well as discrepancies induced by different layer sequences for multilayered anisotropic plates. These results highlight the superiority of the present theoretical model especially for handling multilayered anisotropic structures. PMID:24815294

  20. Multi-view and 3D deformable part models.

    PubMed

    Pepik, Bojan; Stark, Michael; Gehler, Peter; Schiele, Bernt

    2015-11-01

    As objects are inherently 3D, they have been modeled in 3D in the early days of computer vision. Due to the ambiguities arising from mapping 2D features to 3D models, 3D object representations have been neglected and 2D feature-based models are the predominant paradigm in object detection nowadays. While such models have achieved outstanding bounding box detection performance, they come with limited expressiveness, as they are clearly limited in their capability of reasoning about 3D shape or viewpoints. In this work, we bring the worlds of 3D and 2D object representations closer, by building an object detector which leverages the expressive power of 3D object representations while at the same time can be robustly matched to image evidence. To that end, we gradually extend the successful deformable part model [1] to include viewpoint information and part-level 3D geometry information, resulting in several different models with different level of expressiveness. We end up with a 3D object model, consisting of multiple object parts represented in 3D and a continuous appearance model. We experimentally verify that our models, while providing richer object hypotheses than the 2D object models, provide consistently better joint object localization and viewpoint estimation than the state-of-the-art multi-view and 3D object detectors on various benchmarks (KITTI [2] , 3D object classes [3] , Pascal3D+ [4] , Pascal VOC 2007 [5] , EPFL multi-view cars[6] ). PMID:26440264

  1. A 3D Tomographic Model of Asia Based on Pn and P Travel Times from GT Events

    NASA Astrophysics Data System (ADS)

    Young, C. J.; Begnaud, M. L.; Ballard, S.; Phillips, W. S.; Hipp, J. R.; Steck, L. K.; Rowe, C. A.; Chang, M. C.

    2008-12-01

    Increasingly, nuclear explosion monitoring is focusing on detection, location, and identification of small events recorded at regional distances. Because Earth structure is highly variable on regional scales, locating events accurately at these distances requires the use of region-specific models to provide accurate travel times. Improved results have been achieved with composites of 1D models and with approximate 3D models with simplified upper mantle structures, but both approaches introduce non-physical boundaries that are problematic for operational monitoring use. Ultimately, what is needed is a true, seamless 3D model of the Earth. Towards that goal, we have developed a 3D tomographic model of the P velocity of the crust and mantle for the Asian continent. Our model is derived by an iterative least squares travel time inversion of more than one million Pn and teleseismic P picks from some 35,000 events recorded at 4,000+ stations. We invert for P velocities from the top of the crust to the core mantle boundary, along with source and receiver static time terms to account for the effects of event mislocation and unaccounted for fine-scale structure near the receiver. Because large portions of the model are under-constrained, we apply spatially varying damping, which constrains the inversion to update the starting model only where good data coverage is available. Our starting crustal model is taken from the a priori crust and upper mantle model of Asia developed through National Nuclear Security Administration laboratory collaboration, which is based on various global and regional studies, and we substantially increase the damping in the crust to discourage changes from this model. Our starting mantle model is AK135. To simplify the inversion, we fix the depths of the major mantle discontinuities (Moho, 410 km, 660 km). 3D rays are calculated using an implementation of the Um and Thurber ray pseudo-bending approach, with full enforcement of Snell's Law in 3D at

  2. A shape prior-based MRF model for 3D masseter muscle segmentation

    NASA Astrophysics Data System (ADS)

    Majeed, Tahir; Fundana, Ketut; Lüthi, Marcel; Beinemann, Jörg; Cattin, Philippe

    2012-02-01

    Medical image segmentation is generally an ill-posed problem that can only be solved by incorporating prior knowledge. The ambiguities arise due to the presence of noise, weak edges, imaging artifacts, inhomogeneous interior and adjacent anatomical structures having similar intensity profile as the target structure. In this paper we propose a novel approach to segment the masseter muscle using the graph-cut incorporating additional 3D shape priors in CT datasets, which is robust to noise; artifacts; and shape deformations. The main contribution of this paper is in translating the 3D shape knowledge into both unary and pairwise potentials of the Markov Random Field (MRF). The segmentation task is casted as a Maximum-A-Posteriori (MAP) estimation of the MRF. Graph-cut is then used to obtain the global minimum which results in the segmentation of the masseter muscle. The method is tested on 21 CT datasets of the masseter muscle, which are noisy with almost all possessing mild to severe imaging artifacts such as high-density artifacts caused by e.g. the very common dental fillings and dental implants. We show that the proposed technique produces clinically acceptable results to the challenging problem of muscle segmentation, and further provide a quantitative and qualitative comparison with other methods. We statistically show that adding additional shape prior into both unary and pairwise potentials can increase the robustness of the proposed method in noisy datasets.

  3. Electrical conductivity of nanocomposites based on carbon nanotubes: a 3D multiscale modeling approach

    NASA Astrophysics Data System (ADS)

    Grabowski, Krzysztof; Zbyrad, Paulina; Staszewski, Wieslaw J.; Uhl, Tadeusz; Wiatr, Kazimierz; Packo, Pawel

    2016-04-01

    Remarkable electrical properties of carbon nanotubes (CNT) have lead to increased interest in studying CNT- based devices. Many of current researches are devoted to using all kinds of carbon nanomaterials in the con- struction of sensory elements. One of the most common applications is the development of high performance, large scale sensors. Due to the remarkable conductivity of CNT's such devices represent very high sensitivity. However, there are no sufficient tools for studying and designing such sensors. The main objective of this paper is to develop and validate a multiscale numerical model for a carbon nanotubes based sensor. The device utilises the change of electrical conductivity of a nanocomposite material under applied deformation. The nanocomposite consists of a number of CNTs dispersed in polymer matrix. The paper is devoted to the analysis of the impact of spatial distribution of carbon nanotubes in polymer matrix on electrical conductivity of the sensor. One of key elements is also to examine the impact of strain on electric charge ow in such anisotropic composite structures. In the following work a multiscale electro-mechanical model for CNT - based nanocomposites is proposed. The model comprises of two length scales, namely the meso- and the macro-scale for mechanical and electrical domains. The approach allows for evaluation of macro-scale mechanical response of a strain sensor. Electrical properties of polymeric material with certain CNT fractions were derived considering electrical properties of CNTs, their contact and the tunnelling effect.

  4. 3D Printing of Molecular Models

    ERIC Educational Resources Information Center

    Gardner, Adam; Olson, Arthur

    2016-01-01

    Physical molecular models have played a valuable role in our understanding of the invisible nano-scale world. We discuss 3D printing and its use in producing models of the molecules of life. Complex biomolecular models, produced from 3D printed parts, can demonstrate characteristics of molecular structure and function, such as viral self-assembly,…

  5. Web-based Visualization and Query of semantically segmented multiresolution 3D Models in the Field of Cultural Heritage

    NASA Astrophysics Data System (ADS)

    Auer, M.; Agugiaro, G.; Billen, N.; Loos, L.; Zipf, A.

    2014-05-01

    Many important Cultural Heritage sites have been studied over long periods of time by different means of technical equipment, methods and intentions by different researchers. This has led to huge amounts of heterogeneous "traditional" datasets and formats. The rising popularity of 3D models in the field of Cultural Heritage in recent years has brought additional data formats and makes it even more necessary to find solutions to manage, publish and study these data in an integrated way. The MayaArch3D project aims to realize such an integrative approach by establishing a web-based research platform bringing spatial and non-spatial databases together and providing visualization and analysis tools. Especially the 3D components of the platform use hierarchical segmentation concepts to structure the data and to perform queries on semantic entities. This paper presents a database schema to organize not only segmented models but also different Levels-of-Details and other representations of the same entity. It is further implemented in a spatial database which allows the storing of georeferenced 3D data. This enables organization and queries by semantic, geometric and spatial properties. As service for the delivery of the segmented models a standardization candidate of the OpenGeospatialConsortium (OGC), the Web3DService (W3DS) has been extended to cope with the new database schema and deliver a web friendly format for WebGL rendering. Finally a generic user interface is presented which uses the segments as navigation metaphor to browse and query the semantic segmentation levels and retrieve information from an external database of the German Archaeological Institute (DAI).

  6. 3D scene reconstruction based on 3D laser point cloud combining UAV images

    NASA Astrophysics Data System (ADS)

    Liu, Huiyun; Yan, Yangyang; Zhang, Xitong; Wu, Zhenzhen

    2016-03-01

    It is a big challenge capturing and modeling 3D information of the built environment. A number of techniques and technologies are now in use. These include GPS, and photogrammetric application and also remote sensing applications. The experiment uses multi-source data fusion technology for 3D scene reconstruction based on the principle of 3D laser scanning technology, which uses the laser point cloud data as the basis and Digital Ortho-photo Map as an auxiliary, uses 3DsMAX software as a basic tool for building three-dimensional scene reconstruction. The article includes data acquisition, data preprocessing, 3D scene construction. The results show that the 3D scene has better truthfulness, and the accuracy of the scene meet the need of 3D scene construction.

  7. Designing PDT-based combinations to overcome chemoresistance in heterocellular 3D tumor models (Conference Presentation)

    NASA Astrophysics Data System (ADS)

    Rizvi, Imran; Briars, Emma A.; Bulin, Anne-Laure; Anbil, Sriram; Vecchio, Daniela; Alkhateeb, Ahmed; Hanna, William R.; Celli, Jonathan P.; Hasan, Tayyaba

    2016-03-01

    A major barrier to treating advanced-stage cancers is heterogeneity in the responsiveness of metastatic disease to conventional therapies leading to resistance and treatment failure. Photodynamic therapy (PDT) has been shown to synergize with conventional agents and to overcome the evasion pathways that cause resistance. Developing PDT-based combinations that target resistant tumor populations and cooperate mechanistically with conventional agents is an increasingly promising approach to improve therapeutic efficacy while minimizing toxicity, particularly in complex disease sites. Identifying the molecular, cellular, and microenvironmental cues that lead to heterogeneity and treatment resistance is critical to developing strategies to target unresponsive regions of stubborn disease. Cell-based research platforms that integrate key microenvironmental cues are emerging as increasingly important tools to improve the translational efficiency of new agents, and to design combination regimens. Among the challenges associated with developing and scaling complex cell-based screening platforms is the need to integrate, and balance, biological relevance with appropriate, high-content imaging routines that provide meaningful quantitative readouts of therapeutic response. The benefits and challenges associated with deriving meaningful insights from complex cell-based models will be presented, with a particular emphasis on overcoming chemoresistance mediated by physical stress and communication with stromal partners (e.g. tumor endothelial cells, which are emerging as dynamic regulators of treatment resistance) using PDT-based combinations.

  8. Urban Energy Simulation Based on 3d City Models: a Service-Oriented Approach

    NASA Astrophysics Data System (ADS)

    Wate, P.; Rodrigues, P.; Duminil, E.; Coors, V.

    2016-09-01

    Recent advancements in technology has led to the development of sophisticated software tools revitalizing growth in different domains. Taking advantage of this trend, urban energy domain have developed several compute intensive physical and data driven models. These models are used in various distinct simulation softwares to simulate the whole life-cycle of energy flow in cities from supply, distribution, conversion, storage and consumption. Since some simulation software target a specific energy system, it is necessary to integrate them to predict present and future urban energy needs. However, a key drawback is that, these tools are not compatible with each other as they use custom or propriety formats. Furthermore, they are designed as desktop applications and cannot be easily integrated with third-party tools (open source or commercial). Thereby, missing out on potential model functionalities which are required for sustainable urban energy management. In this paper, we propose a solution based on Service Oriented Architecture (SOA). Our approach relies on open interfaces to offer flexible integration of modelling and computational functionality as loosely coupled distributed services.

  9. A Survey on Model Based Approaches for 2D and 3D Visual Human Pose Recovery

    PubMed Central

    Perez-Sala, Xavier; Escalera, Sergio; Angulo, Cecilio; Gonzàlez, Jordi

    2014-01-01

    Human Pose Recovery has been studied in the field of Computer Vision for the last 40 years. Several approaches have been reported, and significant improvements have been obtained in both data representation and model design. However, the problem of Human Pose Recovery in uncontrolled environments is far from being solved. In this paper, we define a general taxonomy to group model based approaches for Human Pose Recovery, which is composed of five main modules: appearance, viewpoint, spatial relations, temporal consistence, and behavior. Subsequently, a methodological comparison is performed following the proposed taxonomy, evaluating current SoA approaches in the aforementioned five group categories. As a result of this comparison, we discuss the main advantages and drawbacks of the reviewed literature. PMID:24594613

  10. A region-appearance-based adaptive variational model for 3D liver segmentation

    SciTech Connect

    Peng, Jialin; Dong, Fangfang; Chen, Yunmei; Kong, Dexing

    2014-04-15

    Purpose: Liver segmentation from computed tomography images is a challenging task owing to pixel intensity overlapping, ambiguous edges, and complex backgrounds. The authors address this problem with a novel active surface scheme, which minimizes an energy functional combining both edge- and region-based information. Methods: In this semiautomatic method, the evolving surface is principally attracted to strong edges but is facilitated by the region-based information where edge information is missing. As avoiding oversegmentation is the primary challenge, the authors take into account multiple features and appearance context information. Discriminative cues, such as multilayer consecutiveness and local organ deformation are also implicitly incorporated. Case-specific intensity and appearance constraints are included to cope with the typically large appearance variations over multiple images. Spatially adaptive balancing weights are employed to handle the nonuniformity of image features. Results: Comparisons and validations on difficult cases showed that the authors’ model can effectively discriminate the liver from adhering background tissues. Boundaries weak in gradient or with no local evidence (e.g., small edge gaps or parts with similar intensity to the background) were delineated without additional user constraint. With an average surface distance of 0.9 mm and an average volume overlap of 93.9% on the MICCAI data set, the authors’ model outperformed most state-of-the-art methods. Validations on eight volumes with different initial conditions had segmentation score variances mostly less than unity. Conclusions: The proposed model can efficiently delineate ambiguous liver edges from complex tissue backgrounds with reproducibility. Quantitative validations and comparative results demonstrate the accuracy and efficacy of the model.

  11. Vision-based building energy diagnostics and retrofit analysis using 3D thermography and building information modeling

    NASA Astrophysics Data System (ADS)

    Ham, Youngjib

    localization issues of 2D thermal image-based inspection, a new computer vision-based method is presented for automated 3D spatio-thermal modeling of building environments from images and localizing the thermal images into the 3D reconstructed scenes, which helps better characterize the as-is condition of existing buildings in 3D. By using these models, auditors can conduct virtual walk-through in buildings and explore the as-is condition of building geometry and the associated thermal conditions in 3D. Second, to address the challenges in qualitative and subjective interpretation of visual data, a new model-based method is presented to convert the 3D thermal profiles of building environments into their associated energy performance metrics. More specifically, the Energy Performance Augmented Reality (EPAR) models are formed which integrate the actual 3D spatio-thermal models ('as-is') with energy performance benchmarks ('as-designed') in 3D. In the EPAR models, the presence and location of potential energy problems in building environments are inferred based on performance deviations. The as-is thermal resistances of the building assemblies are also calculated at the level of mesh vertex in 3D. Then, based on the historical weather data reflecting energy load for space conditioning, the amount of heat transfer that can be saved by improving the as-is thermal resistances of the defective areas to the recommended level is calculated, and the equivalent energy cost for this saving is estimated. The outcome provides building practitioners with unique information that can facilitate energy efficient retrofit decision-makings. This is a major departure from offhand calculations that are based on historical cost data of industry best practices. Finally, to improve the reliability of BIM-based energy performance modeling and analysis for existing buildings, a new model-based automated method is presented to map actual thermal resistance measurements at the level of 3D vertexes to the

  12. The internal density distribution of comet 67P/C-G based on 3D models

    NASA Astrophysics Data System (ADS)

    Jorda, Laurent; Faurschou Hviid, Stubbe; Capanna, Claire; Gaskell, Robert W.; Gutiérrez, Pedro; Preusker, Frank; Scholten, Frank; Rodionov, Sergey; OSIRIS Team

    2016-10-01

    The OSIRIS camera aboard the Rosetta spacecraft observed the nucleus of comet 67P/C-G from the mapping phase in summer 2014 until now. The images have allowed the reconstruction in three-dimension of nucleus surface with stereophotogrammetry (Preusker et al., Astron. Astrophys.) and stereophotoclinometry (Jorda et al., Icarus) techniques. We use the reconstructed models to constrain the internal density distribution based on: (i) the measurement of the offset between the center of mass and the center of figure of the object, and (ii) the assumption that flat areas observed at the surface of the comet correspond to iso-gravity surfaces. The results of our analysis will be presented, and the consequences for the internal structure and formation of the nucleus of comet 67P/C-G will be discussed.

  13. A web-based platform for simulating seismic wave propagation in 3D shallow Earth models with DEM surface topography

    NASA Astrophysics Data System (ADS)

    Luo, Cong; Friederich, Wolfgang

    2016-04-01

    Realistic shallow seismic wave propagation simulation is an important tool for studying induced seismicity (e.g., during geothermal energy development). However over a long time, there is a significant problem which constrains computational seismologists from performing a successful simulation conveniently: pre-processing. Conventional pre-processing has often turned out to be inefficient and unrobust because of the miscellaneous operations, considerable complexity and insufficiency of available tools. An integrated web-based platform for shallow seismic wave propagation simulation has been built. It is aiming at providing a user-friendly pre-processing solution, and cloud-based simulation abilities. The main features of the platform for the user include: revised digital elevation model (DEM) retrieving and processing mechanism; generation of multi-layered 3D shallow Earth model geometry (the computational domain) with user specified surface topography based on the DEM; visualization of the geometry before the simulation; a pipeline from geometry to fully customizable hexahedral element mesh generation; customization and running the simulation on our HPC; post-processing and retrieval of the results over cloud. Regarding the computational aspect, currently the widely accepted specfem3D is chosen as the computational package; packages using different types of elements can be integrated as well in the future. According to our trial simulation experiments, this web-based platform has produced accurate waveforms while significantly simplifying and enhancing the pre-processing and improving the simulation success rate.

  14. BEAMS3D Neutral Beam Injection Model

    SciTech Connect

    Lazerson, Samuel

    2014-04-14

    With the advent of applied 3D fi elds in Tokamaks and modern high performance stellarators, a need has arisen to address non-axisymmetric effects on neutral beam heating and fueling. We report on the development of a fully 3D neutral beam injection (NBI) model, BEAMS3D, which addresses this need by coupling 3D equilibria to a guiding center code capable of modeling neutral and charged particle trajectories across the separatrix and into the plasma core. Ionization, neutralization, charge-exchange, viscous velocity reduction, and pitch angle scattering are modeled with the ADAS atomic physics database [1]. Benchmark calculations are presented to validate the collisionless particle orbits, neutral beam injection model, frictional drag, and pitch angle scattering effects. A calculation of neutral beam heating in the NCSX device is performed, highlighting the capability of the code to handle 3D magnetic fields.

  15. Clinical Application of Solid Model Based on Trabecular Tibia Bone CT Images Created by 3D Printer

    PubMed Central

    Cho, Jaemo; Park, Chan-Soo; Kim, Yeoun-Jae

    2015-01-01

    Objectives The aim of this work is to use a 3D solid model to predict the mechanical loads of human bone fracture risk associated with bone disease conditions according to biomechanical engineering parameters. Methods We used special image processing tools for image segmentation and three-dimensional (3D) reconstruction to generate meshes, which are necessary for the production of a solid model with a 3D printer from computed tomography (CT) images of the human tibia's trabecular and cortical bones. We examined the defects of the mechanism for the tibia's trabecular bones. Results Image processing tools and segmentation techniques were used to analyze bone structures and produce a solid model with a 3D printer. Conclusions These days, bio-imaging (CT and magnetic resonance imaging) devices are able to display and reconstruct 3D anatomical details, and diagnostics are becoming increasingly vital to the quality of patient treatment planning and clinical treatment. Furthermore, radiographic images are being used to study biomechanical systems with several aims, namely, to describe and simulate the mechanical behavior of certain anatomical systems, to analyze pathological bone conditions, to study tissues structure and properties, and to create a solid model using a 3D printer to support surgical planning and reduce experimental costs. These days, research using image processing tools and segmentation techniques to analyze bone structures to produce a solid model with a 3D printer is rapidly becoming very important. PMID:26279958

  16. a Web-Based Interactive Tool for Multi-Resolution 3d Models of a Maya Archaeological Site

    NASA Astrophysics Data System (ADS)

    Agugiaro, G.; Remondino, F.; Girardi, G.; von Schwerin, J.; Richards-Rissetto, H.; De Amicis, R.

    2011-09-01

    Continuous technological advances in surveying, computing and digital-content delivery are strongly contributing to a change in the way Cultural Heritage is "perceived": new tools and methodologies for documentation, reconstruction and research are being created to assist not only scholars, but also to reach more potential users (e.g. students and tourists) willing to access more detailed information about art history and archaeology. 3D computer-simulated models, sometimes set in virtual landscapes, offer for example the chance to explore possible hypothetical reconstructions, while on-line GIS resources can help interactive analyses of relationships and change over space and time. While for some research purposes a traditional 2D approach may suffice, this is not the case for more complex analyses concerning spatial and temporal features of architecture, like for example the relationship of architecture and landscape, visibility studies etc. The project aims therefore at creating a tool, called "QueryArch3D" tool, which enables the web-based visualisation and queries of an interactive, multi-resolution 3D model in the framework of Cultural Heritage. More specifically, a complete Maya archaeological site, located in Copan (Honduras), has been chosen as case study to test and demonstrate the platform's capabilities. Much of the site has been surveyed and modelled at different levels of detail (LoD) and the geometric model has been semantically segmented and integrated with attribute data gathered from several external data sources. The paper describes the characteristics of the research work, along with its implementation issues and the initial results of the developed prototype.

  17. Modeling Cellular Processes in 3-D

    PubMed Central

    Mogilner, Alex; Odde, David

    2011-01-01

    Summary Recent advances in photonic imaging and fluorescent protein technology offer unprecedented views of molecular space-time dynamics in living cells. At the same time, advances in computing hardware and software enable modeling of ever more complex systems, from global climate to cell division. As modeling and experiment become more closely integrated, we must address the issue of modeling cellular processes in 3-D. Here, we highlight recent advances related to 3-D modeling in cell biology. While some processes require full 3-D analysis, we suggest that others are more naturally described in 2-D or 1-D. Keeping the dimensionality as low as possible reduces computational time and makes models more intuitively comprehensible; however, the ability to test full 3-D models will build greater confidence in models generally and remains an important emerging area of cell biological modeling. PMID:22036197

  18. Composite model of a 3-D image

    NASA Technical Reports Server (NTRS)

    Dukhovich, I. J.

    1980-01-01

    This paper presents a composite model of a moving (3-D) image especially useful for the sequential image processing and encoding. A non-linear predictor based on the composite model is described. The performance of this predictor is used as a measure of the validity of the model for a real image source. The minimization of a total mean square prediction error provides an inequality which determines a condition for the profitable use of the composite model and can serve as a decision device for the selection of the number of subsources within the model. The paper also describes statistical properties of the prediction error and contains results of computer simulation of two non-linear predictors in the case of perfect classification between subsources.

  19. Model-based automatic 3d building model generation by integrating LiDAR and aerial images

    NASA Astrophysics Data System (ADS)

    Habib, A.; Kwak, E.; Al-Durgham, M.

    2011-12-01

    Accurate, detailed, and up-to-date 3D building models are important for several applications such as telecommunication network planning, urban planning, and military simulation. Existing building reconstruction approaches can be classified according to the data sources they use (i.e., single versus multi-sensor approaches), the processing strategy (i.e., data-driven, model-driven, or hybrid), or the amount of user interaction (i.e., manual, semiautomatic, or fully automated). While it is obvious that 3D building models are important components for many applications, they still lack the economical and automatic techniques for their generation while taking advantage of the available multi-sensory data and combining processing strategies. In this research, an automatic methodology for building modelling by integrating multiple images and LiDAR data is proposed. The objective of this research work is to establish a framework for automatic building generation by integrating data driven and model-driven approaches while combining the advantages of image and LiDAR datasets.

  20. Synthetic 3D diamond-based electrodes for flexible retinal neuroprostheses: Model, production and in vivo biocompatibility.

    PubMed

    Bendali, Amel; Rousseau, Lionel; Lissorgues, Gaëlle; Scorsone, Emmanuel; Djilas, Milan; Dégardin, Julie; Dubus, Elisabeth; Fouquet, Stéphane; Benosman, Ryad; Bergonzo, Philippe; Sahel, José-Alain; Picaud, Serge

    2015-10-01

    Two retinal implants have recently received the CE mark and one has obtained FDA approval for the restoration of useful vision in blind patients. Since the spatial resolution of current vision prostheses is not sufficient for most patients to detect faces or perform activities of daily living, more electrodes with less crosstalk are needed to transfer complex images to the retina. In this study, we modelled planar and three-dimensional (3D) implants with a distant ground or a ground grid, to demonstrate greater spatial resolution with 3D structures. Using such flexible 3D implant prototypes, we showed that the degenerated retina could mould itself to the inside of the wells, thereby isolating bipolar neurons for specific, independent stimulation. To investigate the in vivo biocompatibility of diamond as an electrode or an isolating material, we developed a procedure for depositing diamond onto flexible 3D retinal implants. Taking polyimide 3D implants as a reference, we compared the number of neurones integrating the 3D diamond structures and their ratio to the numbers of all cells, including glial cells. Bipolar neurones were increased whereas there was no increase even a decrease in the total cell number. SEM examinations of implants confirmed the stability of the diamond after its implantation in vivo. This study further demonstrates the potential of 3D designs for increasing the resolution of retinal implants and validates the safety of diamond materials for retinal implants and neuroprostheses in general.

  1. Nonlaser-based 3D surface imaging

    SciTech Connect

    Lu, Shin-yee; Johnson, R.K.; Sherwood, R.J.

    1994-11-15

    3D surface imaging refers to methods that generate a 3D surface representation of objects of a scene under viewing. Laser-based 3D surface imaging systems are commonly used in manufacturing, robotics and biomedical research. Although laser-based systems provide satisfactory solutions for most applications, there are situations where non laser-based approaches are preferred. The issues that make alternative methods sometimes more attractive are: (1) real-time data capturing, (2) eye-safety, (3) portability, and (4) work distance. The focus of this presentation is on generating a 3D surface from multiple 2D projected images using CCD cameras, without a laser light source. Two methods are presented: stereo vision and depth-from-focus. Their applications are described.

  2. Hyper-hemispheric lens distortion model for 3D-imaging SPAD-array-based applications

    NASA Astrophysics Data System (ADS)

    Pernechele, Claudio; Villa, Federica A.

    2015-09-01

    Panoramic omnidirectional lenses have the typical draw-back effect to obscure the frontal view, producing the classic "donut-shape" image in the focal plane. We realized a panoramic lens in which the frontal field is make available to be imaged in the focal plane together with the panoramic field, producing a FoV of 360° in azimuth and 270° in elevation; it have then the capabilities of a fish eye plus those of a panoramic lens: we call it hyper-hemispheric lens. We built and test an all-spherical hyper-hemispheric lens. The all-spherical configuration suffer for the typical issues of all ultra wide angle lenses: there is a large distortion at high view angles. The fundamental origin of the optical problems resides on the fact that chief rays angles on the object side are not preserved passing through the optics preceding the aperture stop (fore-optics). This effect produce an image distortion on the focal plane, with the focal length changing along the elevation angles. Moreover, the entrance pupil is shifting at large angle, where the paraxial approximation is not more valid, and tracing the rays appropriately require some effort to the optical designer. It has to be noted here as the distortion is not a source-point-aberrations: it is present also in well corrected optical lenses. Image distortion may be partially corrected using aspheric surface. We describe here how we correct it for our original hyper-hemispheric lens by designing an aspheric surface within the optical train and optimized for a Single Photon Avalanche Diode (SPAD) array-based imaging applications.

  3. Evaluation of AN Integrated Gis-Based Crime Analysis & 3d Modelling for Izmir-Konak Municipality

    NASA Astrophysics Data System (ADS)

    Tarhan, C.; Deniz, D.

    2011-08-01

    GIS integrated 3D modelling is crucial for the city planning and design processes because urban modelling is a tool used in virtual environments, and provides convenience to work. Although, the creation and display of 3D city models for large regions is difficult it is vital for planning and designing safer cities, as well as public places. Today, crime is a significant problem in Turkey. When it was compared by years of crime rates, population growth and urbanization rate, an increasing more than in parallel has been observed. This paper aims to discuss GIS integrated 3D modelling affects in urban planning and design, explaining Turkish planning processes with GIS and 3D modelling. To do that, it presents a case study for Izmir Konak Municipality about GIS integrated crime analysis and 3D models of the crime scenes. Izmir crime records has been obtained from Izmir Police Department belonging to 2003-2004 and 2005 (D. Deniz, 2007) are used for districts' crime map. In the light of these data, the highest rate crime district, Konak, is analyzed between 2001 and 2005 data.

  4. Using Parameters of Dynamic Pulse Function for 3d Modeling in LOD3 Based on Random Textures

    NASA Astrophysics Data System (ADS)

    Alizadehashrafi, B.

    2015-12-01

    The pulse function (PF) is a technique based on procedural preprocessing system to generate a computerized virtual photo of the façade with in a fixed size square(Alizadehashrafi et al., 2009, Musliman et al., 2010). Dynamic Pulse Function (DPF) is an enhanced version of PF which can create the final photo, proportional to real geometry. This can avoid distortion while projecting the computerized photo on the generated 3D model(Alizadehashrafi and Rahman, 2013). The challenging issue that might be handled for having 3D model in LoD3 rather than LOD2, is the final aim that have been achieved in this paper. In the technique based DPF the geometries of the windows and doors are saved in an XML file schema which does not have any connections with the 3D model in LoD2 and CityGML format. In this research the parameters of Dynamic Pulse Functions are utilized via Ruby programming language in SketchUp Trimble to generate (exact position and deepness) the windows and doors automatically in LoD3 based on the same concept of DPF. The advantage of this technique is automatic generation of huge number of similar geometries e.g. windows by utilizing parameters of DPF along with defining entities and window layers. In case of converting the SKP file to CityGML via FME software or CityGML plugins the 3D model contains the semantic database about the entities and window layers which can connect the CityGML to MySQL(Alizadehashrafi and Baig, 2014). The concept behind DPF, is to use logical operations to project the texture on the background image which is dynamically proportional to real geometry. The process of projection is based on two vertical and horizontal dynamic pulses starting from upper-left corner of the background wall in down and right directions respectively based on image coordinate system. The logical one/zero on the intersections of two vertical and horizontal dynamic pulses projects/does not project the texture on the background image. It is possible to define

  5. Using Parameters of Dynamic Pulse Function for 3d Modeling in LOD3 Based on Random Textures

    NASA Astrophysics Data System (ADS)

    Alizadehashrafi, B.

    2015-12-01

    The pulse function (PF) is a technique based on procedural preprocessing system to generate a computerized virtual photo of the façade with in a fixed size square(Alizadehashrafi et al., 2009, Musliman et al., 2010). Dynamic Pulse Function (DPF) is an enhanced version of PF which can create the final photo, proportional to real geometry. This can avoid distortion while projecting the computerized photo on the generated 3D model(Alizadehashrafi and Rahman, 2013). The challenging issue that might be handled for having 3D model in LoD3 rather than LOD2, is the final aim that have been achieved in this paper. In the technique based DPF the geometries of the windows and doors are saved in an XML file schema which does not have any connections with the 3D model in LoD2 and CityGML format. In this research the parameters of Dynamic Pulse Functions are utilized via Ruby programming language in SketchUp Trimble to generate (exact position and deepness) the windows and doors automatically in LoD3 based on the same concept of DPF. The advantage of this technique is automatic generation of huge number of similar geometries e.g. windows by utilizing parameters of DPF along with defining entities and window layers. In case of converting the SKP file to CityGML via FME software or CityGML plugins the 3D model contains the semantic database about the entities and window layers which can connect the CityGML to MySQL(Alizadehashrafi and Baig, 2014). The concept behind DPF, is to use logical operations to project the texture on the background image which is dynamically proportional to real geometry. The process of projection is based on two vertical and horizontal dynamic pulses starting from upper-left corner of the background wall in down and right directions respectively based on image coordinate system. The logical one/zero on the intersections of two vertical and horizontal dynamic pulses projects/does not project the texture on the background image. It is possible to define

  6. An Augmented Reality based 3D Catalog

    NASA Astrophysics Data System (ADS)

    Yamada, Ryo; Kishimoto, Katsumi

    This paper presents a 3D catalog system that uses Augmented Reality technology. The use of Web-based catalog systems that present products in 3D form is increasing in various fields, along with the rapid and widespread adoption of Electronic Commerce. However, 3D shapes could previously only be seen in a virtual space, and it was difficult to understand how the products would actually look in the real world. To solve this, we propose a method that combines the virtual and real worlds simply and intuitively. The method applies Augmented Reality technology, and the system developed based on the method enables users to evaluate 3D virtual products in a real environment.

  7. Random-profiles-based 3D face recognition system.

    PubMed

    Kim, Joongrock; Yu, Sunjin; Lee, Sangyoun

    2014-01-01

    In this paper, a noble nonintrusive three-dimensional (3D) face modeling system for random-profile-based 3D face recognition is presented. Although recent two-dimensional (2D) face recognition systems can achieve a reliable recognition rate under certain conditions, their performance is limited by internal and external changes, such as illumination and pose variation. To address these issues, 3D face recognition, which uses 3D face data, has recently received much attention. However, the performance of 3D face recognition highly depends on the precision of acquired 3D face data, while also requiring more computational power and storage capacity than 2D face recognition systems. In this paper, we present a developed nonintrusive 3D face modeling system composed of a stereo vision system and an invisible near-infrared line laser, which can be directly applied to profile-based 3D face recognition. We further propose a novel random-profile-based 3D face recognition method that is memory-efficient and pose-invariant. The experimental results demonstrate that the reconstructed 3D face data consists of more than 50 k 3D point clouds and a reliable recognition rate against pose variation.

  8. Random-Profiles-Based 3D Face Recognition System

    PubMed Central

    Joongrock, Kim; Sunjin, Yu; Sangyoun, Lee

    2014-01-01

    In this paper, a noble nonintrusive three-dimensional (3D) face modeling system for random-profile-based 3D face recognition is presented. Although recent two-dimensional (2D) face recognition systems can achieve a reliable recognition rate under certain conditions, their performance is limited by internal and external changes, such as illumination and pose variation. To address these issues, 3D face recognition, which uses 3D face data, has recently received much attention. However, the performance of 3D face recognition highly depends on the precision of acquired 3D face data, while also requiring more computational power and storage capacity than 2D face recognition systems. In this paper, we present a developed nonintrusive 3D face modeling system composed of a stereo vision system and an invisible near-infrared line laser, which can be directly applied to profile-based 3D face recognition. We further propose a novel random-profile-based 3D face recognition method that is memory-efficient and pose-invariant. The experimental results demonstrate that the reconstructed 3D face data consists of more than 50 k 3D point clouds and a reliable recognition rate against pose variation. PMID:24691101

  9. Automatic left-atrial segmentation from cardiac 3D ultrasound: a dual-chamber model-based approach

    NASA Astrophysics Data System (ADS)

    Almeida, Nuno; Sarvari, Sebastian I.; Orderud, Fredrik; Gérard, Olivier; D'hooge, Jan; Samset, Eigil

    2016-04-01

    In this paper, we present an automatic solution for segmentation and quantification of the left atrium (LA) from 3D cardiac ultrasound. A model-based framework is applied, making use of (deformable) active surfaces to model the endocardial surfaces of cardiac chambers, allowing incorporation of a priori anatomical information in a simple fashion. A dual-chamber model (LA and left ventricle) is used to detect and track the atrio-ventricular (AV) plane, without any user input. Both chambers are represented by parametric surfaces and a Kalman filter is used to fit the model to the position of the endocardial walls detected in the image, providing accurate detection and tracking during the whole cardiac cycle. This framework was tested in 20 transthoracic cardiac ultrasound volumetric recordings of healthy volunteers, and evaluated using manual traces of a clinical expert as a reference. The 3D meshes obtained with the automatic method were close to the reference contours at all cardiac phases (mean distance of 0.03+/-0.6 mm). The AV plane was detected with an accuracy of -0.6+/-1.0 mm. The LA volumes assessed automatically were also in agreement with the reference (mean +/-1.96 SD): 0.4+/-5.3 ml, 2.1+/-12.6 ml, and 1.5+/-7.8 ml at end-diastolic, end-systolic and pre-atrial-contraction frames, respectively. This study shows that the proposed method can be used for automatic volumetric assessment of the LA, considerably reducing the analysis time and effort when compared to manual analysis.

  10. 3D Stratigraphic Modeling of Central Aachen

    NASA Astrophysics Data System (ADS)

    Dong, M.; Neukum, C.; Azzam, R.; Hu, H.

    2010-05-01

    Since 1980s, advanced computer hardware and software technologies, as well as multidisciplinary research have provided possibilities to develop advanced three dimensional (3D) simulation software for geosciences application. Some countries, such as USA1) and Canada2) 3), have built up regional 3D geological models based on archival geological data. Such models have played huge roles in engineering geology2), hydrogeology2) 3), geothermal industry1) and so on. In cooperating with the Municipality of Aachen, the Department of Engineering Geology of RWTH Aachen University have built up a computer-based 3D stratigraphic model of 50 meter' depth for the center of Aachen, which is a 5 km by 7 km geologically complex area. The uncorrelated data from multi-resources, discontinuous nature and unconformable connection of the units are main challenges for geological modeling in this area. The reliability of 3D geological models largely depends on the quality and quantity of data. Existing 1D and 2D geological data were collected, including 1) approximately 6970 borehole data of different depth compiled in Microsoft Access database and MapInfo database; 2) a Digital Elevation Model (DEM); 3) geological cross sections; and 4) stratigraphic maps in 1m, 2m and 5m depth. Since acquired data are of variable origins, they were managed step by step. The main processes are described below: 1) Typing errors of borehole data were identified and the corrected data were exported to Variowin2.2 to distinguish duplicate points; 2) The surface elevation of borehole data was compared to the DEM, and differences larger than 3m were eliminated. Moreover, where elevation data missed, it was read from the DEM; 3) Considerable data were collected from municipal constructions, such as residential buildings, factories, and roads. Therefore, many boreholes are spatially clustered, and only one or two representative points were picked out in such areas; After above procedures, 5839 boreholes with -x

  11. The CIFIST 3D model atmosphere grid.

    NASA Astrophysics Data System (ADS)

    Ludwig, H.-G.; Caffau, E.; Steffen, M.; Freytag, B.; Bonifacio, P.; Kučinskas, A.

    Grids of stellar atmosphere models and associated synthetic spectra are numerical products which have a large impact in astronomy due to their ubiquitous application in the interpretation of radiation from individual stars and stellar populations. 3D model atmospheres are now on the verge of becoming generally available for a wide range of stellar atmospheric parameters. We report on efforts to develop a grid of 3D model atmospheres for late-type stars within the CIFIST Team at Paris Observatory. The substantial demands in computational and human labor for the model production and post-processing render this apparently mundane task a challenging logistic exercise. At the moment the CIFIST grid comprises 77 3D model atmospheres with emphasis on dwarfs of solar and sub-solar metallicities. While the model production is still ongoing, first applications are already worked upon by the CIFIST Team and collaborators.

  12. PDE-based geophysical modelling using finite elements: examples from 3D resistivity and 2D magnetotellurics

    NASA Astrophysics Data System (ADS)

    Schaa, R.; Gross, L.; du Plessis, J.

    2016-04-01

    We present a general finite-element solver, escript, tailored to solve geophysical forward and inverse modeling problems in terms of partial differential equations (PDEs) with suitable boundary conditions. Escript’s abstract interface allows geoscientists to focus on solving the actual problem without being experts in numerical modeling. General-purpose finite element solvers have found wide use especially in engineering fields and find increasing application in the geophysical disciplines as these offer a single interface to tackle different geophysical problems. These solvers are useful for data interpretation and for research, but can also be a useful tool in educational settings. This paper serves as an introduction into PDE-based modeling with escript where we demonstrate in detail how escript is used to solve two different forward modeling problems from applied geophysics (3D DC resistivity and 2D magnetotellurics). Based on these two different cases, other geophysical modeling work can easily be realized. The escript package is implemented as a Python library and allows the solution of coupled, linear or non-linear, time-dependent PDEs. Parallel execution for both shared and distributed memory architectures is supported and can be used without modifications to the scripts.

  13. 3D Faulting Numerical Model Related To 2009 L'Aquila Earthquake Based On DInSAR Observations

    NASA Astrophysics Data System (ADS)

    Castaldo, Raffaele; Tizzani, Pietro; Solaro, Giuseppe; Pepe, Susi; Lanari, Riccardo

    2014-05-01

    We investigate the surface displacements in the area affected by the April 6, 2009 L'Aquila earthquake (Central Italy) through an advanced 3D numerical modeling approach, by exploiting DInSAR deformation velocity maps based on ENVISAT (Ascending and Descending orbits) and COSMO-SkyMed data (Ascending orbit). We benefited from the available geological and geophysical information to investigate the impact of known buried structures on the modulation of the observed ground deformation field; in this context we implemented the a priori information in a Finite Element (FE) Environment considering a structural mechanical physical approach. The performed analysis demonstrate that the displacement pattern associated with the Mw 6.3 main-shock event is consistent with the activation of several fault segments of the Paganica fault. In particular, we analyzed the seismic events in a structural mechanical context under the plane stress mode approximation to solve for the retrieved displacements. We defined the sub-domain setting of the 3D FEM model using the information derived from the CROOP M-15 seismic line. We assumed stationarity and linear elasticity of the involved materials by considering a solution of classical equilibrium mechanical equations. We evolved our model through two stages: the model compacted under the weight of the rock successions (gravity loading) until it reached a stable equilibrium. At the second stage (co-seismic), where the stresses were released through a slip along the faults, by using an optimization procedure we retrieved: (i) the active seismogenic structures responsible for the observed ground deformation, (ii) the effects of the different mechanical constraints on the ground deformation pattern and (iii) the spatial distribution of the retrieved stress field. We evaluated the boundary setting best fit configuration responsible for the observed ground deformation. To this aim, we first generated several forward structural mechanical models

  14. 3D fast wavelet network model-assisted 3D face recognition

    NASA Astrophysics Data System (ADS)

    Said, Salwa; Jemai, Olfa; Zaied, Mourad; Ben Amar, Chokri

    2015-12-01

    In last years, the emergence of 3D shape in face recognition is due to its robustness to pose and illumination changes. These attractive benefits are not all the challenges to achieve satisfactory recognition rate. Other challenges such as facial expressions and computing time of matching algorithms remain to be explored. In this context, we propose our 3D face recognition approach using 3D wavelet networks. Our approach contains two stages: learning stage and recognition stage. For the training we propose a novel algorithm based on 3D fast wavelet transform. From 3D coordinates of the face (x,y,z), we proceed to voxelization to get a 3D volume which will be decomposed by 3D fast wavelet transform and modeled after that with a wavelet network, then their associated weights are considered as vector features to represent each training face . For the recognition stage, an unknown identity face is projected on all the training WN to obtain a new vector features after every projection. A similarity score is computed between the old and the obtained vector features. To show the efficiency of our approach, experimental results were performed on all the FRGC v.2 benchmark.

  15. 3D printing of textile-based structures by Fused Deposition Modelling (FDM) with different polymer materials

    NASA Astrophysics Data System (ADS)

    Melnikova, R.; Ehrmann, A.; Finsterbusch, K.

    2014-08-01

    3D printing is a form of additive manufacturing, i.e. creating objects by sequential layering, for pre-production or production. After creating a 3D model with a CAD program, a printable file is used to create a layer design which is printed afterwards. While often more expensive than traditional techniques like injection moulding, 3D printing can significantly enhance production times of small parts produced in small numbers, additionally allowing for large flexibility and the possibility to create parts that would be impossible to produce with conventional techniques. The Fused Deposition Modelling technique uses a plastic filament which is pushed through a heated extrusion nozzle melting the material. Depending on the material, different challenges occur in the production process, and the produced part shows different mechanical properties. The article describes some standard and novel materials and their influence on the resulting parts.

  16. 3D Face modeling using the multi-deformable method.

    PubMed

    Hwang, Jinkyu; Yu, Sunjin; Kim, Joongrock; Lee, Sangyoun

    2012-01-01

    In this paper, we focus on the problem of the accuracy performance of 3D face modeling techniques using corresponding features in multiple views, which is quite sensitive to feature extraction errors. To solve the problem, we adopt a statistical model-based 3D face modeling approach in a mirror system consisting of two mirrors and a camera. The overall procedure of our 3D facial modeling method has two primary steps: 3D facial shape estimation using a multiple 3D face deformable model and texture mapping using seamless cloning that is a type of gradient-domain blending. To evaluate our method's performance, we generate 3D faces of 30 individuals and then carry out two tests: accuracy test and robustness test. Our method shows not only highly accurate 3D face shape results when compared with the ground truth, but also robustness to feature extraction errors. Moreover, 3D face rendering results intuitively show that our method is more robust to feature extraction errors than other 3D face modeling methods. An additional contribution of our method is that a wide range of face textures can be acquired by the mirror system. By using this texture map, we generate realistic 3D face for individuals at the end of the paper. PMID:23201976

  17. 3D Face Modeling Using the Multi-Deformable Method

    PubMed Central

    Hwang, Jinkyu; Yu, Sunjin; Kim, Joongrock; Lee, Sangyoun

    2012-01-01

    In this paper, we focus on the problem of the accuracy performance of 3D face modeling techniques using corresponding features in multiple views, which is quite sensitive to feature extraction errors. To solve the problem, we adopt a statistical model-based 3D face modeling approach in a mirror system consisting of two mirrors and a camera. The overall procedure of our 3D facial modeling method has two primary steps: 3D facial shape estimation using a multiple 3D face deformable model and texture mapping using seamless cloning that is a type of gradient-domain blending. To evaluate our method's performance, we generate 3D faces of 30 individuals and then carry out two tests: accuracy test and robustness test. Our method shows not only highly accurate 3D face shape results when compared with the ground truth, but also robustness to feature extraction errors. Moreover, 3D face rendering results intuitively show that our method is more robust to feature extraction errors than other 3D face modeling methods. An additional contribution of our method is that a wide range of face textures can be acquired by the mirror system. By using this texture map, we generate realistic 3D face for individuals at the end of the paper. PMID:23201976

  18. 3D Modeling Engine Representation Summary Report

    SciTech Connect

    Steven Prescott; Ramprasad Sampath; Curtis Smith; Timothy Yang

    2014-09-01

    Computers have been used for 3D modeling and simulation, but only recently have computational resources been able to give realistic results in a reasonable time frame for large complex models. This summary report addressed the methods, techniques, and resources used to develop a 3D modeling engine to represent risk analysis simulation for advanced small modular reactor structures and components. The simulations done for this evaluation were focused on external events, specifically tsunami floods, for a hypothetical nuclear power facility on a coastline.

  19. BEAMS3D Neutral Beam Injection Model

    NASA Astrophysics Data System (ADS)

    McMillan, Matthew; Lazerson, Samuel A.

    2014-09-01

    With the advent of applied 3D fields in Tokamaks and modern high performance stellarators, a need has arisen to address non-axisymmetric effects on neutral beam heating and fueling. We report on the development of a fully 3D neutral beam injection (NBI) model, BEAMS3D, which addresses this need by coupling 3D equilibria to a guiding center code capable of modeling neutral and charged particle trajectories across the separatrix and into the plasma core. Ionization, neutralization, charge-exchange, viscous slowing down, and pitch angle scattering are modeled with the ADAS atomic physics database. Elementary benchmark calculations are presented to verify the collisionless particle orbits, NBI model, frictional drag, and pitch angle scattering effects. A calculation of neutral beam heating in the NCSX device is performed, highlighting the capability of the code to handle 3D magnetic fields. Notice: this manuscript has been authored by Princeton University under Contract Number DE-AC02-09CH11466 with the US Department of Energy. The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a non-exclusive, paid-up, irrevocable, world-wide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes.

  20. Fundamental Study on Applicability of Powder-Based 3D Printer for Physical Modeling in Rock Mechanics

    NASA Astrophysics Data System (ADS)

    Fereshtenejad, Sayedalireza; Song, Jae-Joon

    2016-06-01

    Applications of 3D printing technology become more widespread in many research fields because of its rapid development and valuable capabilities. In rock mechanics and mining engineering, this technology has the potential to become a useful tool that might help implement a number of research studies previously considered impractical. Most commercial 3D printers cannot print prototypes with mechanical properties that match precisely those of natural rock samples. Therefore, some additional enhancements are required for 3D printers to be effectively utilized for rock mechanics applications. In this study, we printed and studied specimens using a powder-based commercial ZPrinter® 450 with ZP® 150 powder and Zb® 63 binder used as raw materials. The specimens printed by this 3D printer exhibited relatively low strength and ductile behavior, implying that it needs further improvements. Hence, we focused on several ways to determine the best combination of printing options and post-processing including the effects of the printing direction, printing layer thickness, binder saturation level, and heating process on the uniaxial compressive strength (UCS) and stress-strain behavior of the printed samples. The suggested procedures have demonstrated their effectiveness by obtaining the printed samples that behave similarly to the natural rocks with low UCS. Although our optimization methods were particularly successful, further improvements are required to expand 3D printer application in the area of rock mechanics.

  1. Spatial Pattern Dynamics of 3D Stem Cell Loss of Pluripotency via Rules-Based Computational Modeling

    PubMed Central

    White, Douglas E.; Kinney, Melissa A.; McDevitt, Todd C.; Kemp, Melissa L.

    2013-01-01

    Pluripotent embryonic stem cells (ESCs) have the unique ability to differentiate into cells from all germ lineages, making them a potentially robust cell source for regenerative medicine therapies, but difficulties in predicting and controlling ESC differentiation currently limit the development of therapies and applications from such cells. A common approach to induce the differentiation of ESCs in vitro is via the formation of multicellular aggregates known as embryoid bodies (EBs), yet cell fate specification within EBs is generally considered an ill-defined and poorly controlled process. Thus, the objective of this study was to use rules-based cellular modeling to provide insight into which processes influence initial cell fate transitions in 3-dimensional microenvironments. Mouse embryonic stem cells (D3 cell line) were differentiated to examine the temporal and spatial patterns associated with loss of pluripotency as measured through Oct4 expression. Global properties of the multicellular aggregates were accurately recapitulated by a physics-based aggregation simulation when compared to experimentally measured physical parameters of EBs. Oct4 expression patterns were analyzed by confocal microscopy over time and compared to simulated trajectories of EB patterns. The simulations demonstrated that loss of Oct4 can be modeled as a binary process, and that associated patterns can be explained by a set of simple rules that combine baseline stochasticity with intercellular communication. Competing influences between Oct4+ and Oct4− neighbors result in the observed patterns of pluripotency loss within EBs, establishing the utility of rules-based modeling for hypothesis generation of underlying ESC differentiation processes. Importantly, the results indicate that the rules dominate the emergence of patterns independent of EB structure, size, or cell division. In combination with strategies to engineer cellular microenvironments, this type of modeling approach is a

  2. 3-D Teaching Models for All

    ERIC Educational Resources Information Center

    Bradley, Joan; Farland-Smith, Donna

    2010-01-01

    Allowing a student to "see" through touch what other students see through a microscope can be a challenging task. Therefore, author Joan Bradley created three-dimensional (3-D) models with one student's visual impairment in mind. They are meant to benefit all students and can be used to teach common high school biology topics, including the…

  3. Hot-melt extruded filaments based on pharmaceutical grade polymers for 3D printing by fused deposition modeling.

    PubMed

    Melocchi, Alice; Parietti, Federico; Maroni, Alessandra; Foppoli, Anastasia; Gazzaniga, Andrea; Zema, Lucia

    2016-07-25

    Fused deposition modeling (FDM) is a 3D printing technique based on the deposition of successive layers of thermoplastic materials following their softening/melting. Such a technique holds huge potential for the manufacturing of pharmaceutical products and is currently under extensive investigation. Challenges in this field are mainly related to the paucity of adequate filaments composed of pharmaceutical grade materials, which are needed for feeding the FDM equipment. Accordingly, a number of polymers of common use in pharmaceutical formulation were evaluated as starting materials for fabrication via hot melt extrusion of filaments suitable for FDM processes. By using a twin-screw extruder, filaments based on insoluble (ethylcellulose, Eudragit(®) RL), promptly soluble (polyethylene oxide, Kollicoat(®) IR), enteric soluble (Eudragit(®) L, hydroxypropyl methylcellulose acetate succinate) and swellable/erodible (hydrophilic cellulose derivatives, polyvinyl alcohol, Soluplus(®)) polymers were successfully produced, and the possibility of employing them for printing 600μm thick disks was demonstrated. The behavior of disks as barriers when in contact with aqueous fluids was shown consistent with the functional application of the relevant polymeric components. The produced filaments were thus considered potentially suitable for printing capsules and coating layers for immediate or modified release, and, when loaded with active ingredients, any type of dosage forms.

  4. Hot-melt extruded filaments based on pharmaceutical grade polymers for 3D printing by fused deposition modeling.

    PubMed

    Melocchi, Alice; Parietti, Federico; Maroni, Alessandra; Foppoli, Anastasia; Gazzaniga, Andrea; Zema, Lucia

    2016-07-25

    Fused deposition modeling (FDM) is a 3D printing technique based on the deposition of successive layers of thermoplastic materials following their softening/melting. Such a technique holds huge potential for the manufacturing of pharmaceutical products and is currently under extensive investigation. Challenges in this field are mainly related to the paucity of adequate filaments composed of pharmaceutical grade materials, which are needed for feeding the FDM equipment. Accordingly, a number of polymers of common use in pharmaceutical formulation were evaluated as starting materials for fabrication via hot melt extrusion of filaments suitable for FDM processes. By using a twin-screw extruder, filaments based on insoluble (ethylcellulose, Eudragit(®) RL), promptly soluble (polyethylene oxide, Kollicoat(®) IR), enteric soluble (Eudragit(®) L, hydroxypropyl methylcellulose acetate succinate) and swellable/erodible (hydrophilic cellulose derivatives, polyvinyl alcohol, Soluplus(®)) polymers were successfully produced, and the possibility of employing them for printing 600μm thick disks was demonstrated. The behavior of disks as barriers when in contact with aqueous fluids was shown consistent with the functional application of the relevant polymeric components. The produced filaments were thus considered potentially suitable for printing capsules and coating layers for immediate or modified release, and, when loaded with active ingredients, any type of dosage forms. PMID:27215535

  5. Microfluidic 3D models of cancer

    PubMed Central

    Sung, Kyung Eun; Beebe, David J.

    2014-01-01

    Despite advances in medicine and biomedical sciences, cancer still remains a major health issue. Complex interactions between tumors and their microenvironment contribute to tumor initiation and progression and also contribute to the development of drug resistant tumor cell populations. The complexity and heterogeneity of tumors and their microenvironment make it challenging to both study and treat cancer. Traditional animal cancer models and in vitro cancer models are limited in their ability to recapitulate human structures and functions, thus hindering the identification of appropriate drug targets and therapeutic strategies. The development and application of microfluidic 3D cancer models has the potential to overcome some of the limitations inherent to traditional models. This review summarizes the progress in microfluidic 3D cancer models, their benefits, and their broad application to basic cancer biology, drug screening, and drug discovery. PMID:25017040

  6. Microfluidic 3D models of cancer.

    PubMed

    Sung, Kyung Eun; Beebe, David J

    2014-12-15

    Despite advances in medicine and biomedical sciences, cancer still remains a major health issue. Complex interactions between tumors and their microenvironment contribute to tumor initiation and progression and also contribute to the development of drug resistant tumor cell populations. The complexity and heterogeneity of tumors and their microenvironment make it challenging to both study and treat cancer. Traditional animal cancer models and in vitro cancer models are limited in their ability to recapitulate human structures and functions, thus hindering the identification of appropriate drug targets and therapeutic strategies. The development and application of microfluidic 3D cancer models have the potential to overcome some of the limitations inherent to traditional models. This review summarizes the progress in microfluidic 3D cancer models, their benefits, and their broad application to basic cancer biology, drug screening, and drug discovery.

  7. Do-It-Yourself: 3D Models of Hydrogenic Orbitals through 3D Printing

    ERIC Educational Resources Information Center

    Griffith, Kaitlyn M.; de Cataldo, Riccardo; Fogarty, Keir H.

    2016-01-01

    Introductory chemistry students often have difficulty visualizing the 3-dimensional shapes of the hydrogenic electron orbitals without the aid of physical 3D models. Unfortunately, commercially available models can be quite expensive. 3D printing offers a solution for producing models of hydrogenic orbitals. 3D printing technology is widely…

  8. Highway 3D model from image and lidar data

    NASA Astrophysics Data System (ADS)

    Chen, Jinfeng; Chu, Henry; Sun, Xiaoduan

    2014-05-01

    We present a new method of highway 3-D model construction developed based on feature extraction in highway images and LIDAR data. We describe the processing road coordinate data that connect the image frames to the coordinates of the elevation data. Image processing methods are used to extract sky, road, and ground regions as well as significant objects (such as signs and building fronts) in the roadside for the 3D model. LIDAR data are interpolated and processed to extract the road lanes as well as other features such as trees, ditches, and elevated objects to form the 3D model. 3D geometry reasoning is used to match the image features to the 3D model. Results from successive frames are integrated to improve the final model.

  9. Quantification of the accuracy of MRI generated 3D models of long bones compared to CT generated 3D models.

    PubMed

    Rathnayaka, Kanchana; Momot, Konstantin I; Noser, Hansrudi; Volp, Andrew; Schuetz, Michael A; Sahama, Tony; Schmutz, Beat

    2012-04-01

    Orthopaedic fracture fixation implants are increasingly being designed using accurate 3D models of long bones based on computer tomography (CT). Unlike CT, magnetic resonance imaging (MRI) does not involve ionising radiation and is therefore a desirable alternative to CT. This study aims to quantify the accuracy of MRI-based 3D models compared to CT-based 3D models of long bones. The femora of five intact cadaver ovine limbs were scanned using a 1.5 T MRI and a CT scanner. Image segmentation of CT and MRI data was performed using a multi-threshold segmentation method. Reference models were generated by digitising the bone surfaces free of soft tissue with a mechanical contact scanner. The MRI- and CT-derived models were validated against the reference models. The results demonstrated that the CT-based models contained an average error of 0.15 mm while the MRI-based models contained an average error of 0.23 mm. Statistical validation shows that there are no significant differences between 3D models based on CT and MRI data. These results indicate that the geometric accuracy of MRI based 3D models was comparable to that of CT-based models and therefore MRI is a potential alternative to CT for generation of 3D models with high geometric accuracy.

  10. The foundation of 3D geometry model in omni-directional laser warning system based on diffuse reflection detection

    NASA Astrophysics Data System (ADS)

    Zhang, Weian; Wang, Long; Dong, Qixin

    2011-06-01

    The omni-directional laser warning equipment based on infrared fish-eye lens and short-wave infrared FPA has been used to protect large-scale targets, which can detect the threat laser scattered by the attacked targets or the objects surrounding them, and image the laser spot on FPA, then fix the position of spot. The application offsets the disadvantage of direct interception warner which need disposed largely. Before study of imaging mechanism about the scattered laser spot, the definition of geometry relationship is needed firstly. In this paper we developed a 3D geometry model by analyzing the position relationships in typical battlefield environment among the enemy's threat laser source, the laser spot radiated on one flat surface and our omni-directional laser warning fish-eye lens. The model including R, α, β, d, θ, φ, ψ, δ etc. 8 parameters and 4 coordinate systems was suitable for any general situations. After achievement of the model foundation, we obtained analytic expression of the laser spot contour on flat surface, then attained analytic expression of spot contour on image surface by calculating the object space half-field angle and the azimuth angle relative to fish-eye lens of an arbitrary point at the spot edge on flat surface. The attainment of the expression makes possible that we can analyze the spot energy distributions on image surface and the imaging characteristic of the scattered laser spot via fish-eye lens, then can compute the transmission direction of the threat laser. The foundation of the model in this paper has an importantly basic and guiding meaning to the latter research on this aspect.

  11. An Automated 3d Indoor Topological Navigation Network Modelling

    NASA Astrophysics Data System (ADS)

    Jamali, A.; Rahman, A. A.; Boguslawski, P.; Gold, C. M.

    2015-10-01

    Indoor navigation is important for various applications such as disaster management and safety analysis. In the last decade, indoor environment has been a focus of wide research; that includes developing techniques for acquiring indoor data (e.g. Terrestrial laser scanning), 3D indoor modelling and 3D indoor navigation models. In this paper, an automated 3D topological indoor network generated from inaccurate 3D building models is proposed. In a normal scenario, 3D indoor navigation network derivation needs accurate 3D models with no errors (e.g. gap, intersect) and two cells (e.g. rooms, corridors) should touch each other to build their connections. The presented 3D modeling of indoor navigation network is based on surveying control points and it is less dependent on the 3D geometrical building model. For reducing time and cost of indoor building data acquisition process, Trimble LaserAce 1000 as surveying instrument is used. The modelling results were validated against an accurate geometry of indoor building environment which was acquired using Trimble M3 total station.

  12. Virtual 3d City Modeling: Techniques and Applications

    NASA Astrophysics Data System (ADS)

    Singh, S. P.; Jain, K.; Mandla, V. R.

    2013-08-01

    3D city model is a digital representation of the Earth's surface and it's related objects such as Building, Tree, Vegetation, and some manmade feature belonging to urban area. There are various terms used for 3D city models such as "Cybertown", "Cybercity", "Virtual City", or "Digital City". 3D city models are basically a computerized or digital model of a city contains the graphic representation of buildings and other objects in 2.5 or 3D. Generally three main Geomatics approach are using for Virtual 3-D City models generation, in first approach, researcher are using Conventional techniques such as Vector Map data, DEM, Aerial images, second approach are based on High resolution satellite images with LASER scanning, In third method, many researcher are using Terrestrial images by using Close Range Photogrammetry with DSM & Texture mapping. We start this paper from the introduction of various Geomatics techniques for 3D City modeling. These techniques divided in to two main categories: one is based on Automation (Automatic, Semi-automatic and Manual methods), and another is Based on Data input techniques (one is Photogrammetry, another is Laser Techniques). After details study of this, finally in short, we are trying to give the conclusions of this study. In the last, we are trying to give the conclusions of this research paper and also giving a short view for justification and analysis, and present trend for 3D City modeling. This paper gives an overview about the Techniques related with "Generation of Virtual 3-D City models using Geomatics Techniques" and the Applications of Virtual 3D City models. Photogrammetry, (Close range, Aerial, Satellite), Lasergrammetry, GPS, or combination of these modern Geomatics techniques play a major role to create a virtual 3-D City model. Each and every techniques and method has some advantages and some drawbacks. Point cloud model is a modern trend for virtual 3-D city model. Photo-realistic, Scalable, Geo-referenced virtual 3

  13. The effect of parameters of equilibrium-based 3-D biomechanical models on extracted muscle synergies during isometric lumbar exertion.

    PubMed

    Eskandari, A H; Sedaghat-Nejad, E; Rashedi, E; Sedighi, A; Arjmand, N; Parnianpour, M

    2016-04-11

    A hallmark of more advanced models is their higher details of trunk muscles represented by a larger number of muscles. The question is if in reality we control these muscles individually as independent agents or we control groups of them called "synergy". To address this, we employed a 3-D biomechanical model of the spine with 18 trunk muscles that satisfied equilibrium conditions at L4/5, with different cost functions. The solutions of several 2-D and 3-D tasks were arranged in a data matrix and the synergies were computed by using non-negative matrix factorization (NMF) algorithms. Variance accounted for (VAF) was used to evaluate the number of synergies that emerged by the analysis, which were used to reconstruct the original muscle activations. It was showed that four and six muscle synergies were adequate to reconstruct the input data of 2-D and 3-D torque space analysis. The synergies were different by choosing alternative cost functions as expected. The constraints affected the extracted muscle synergies, particularly muscles that participated in more than one functional tasks were influenced substantially. The compositions of extracted muscle synergies were in agreement with experimental studies on healthy participants. The following computational methods show that the synergies can reduce the complexity of load distributions and allow reduced dimensional space to be used in clinical settings.

  14. Collaborative annotation of 3D crystallographic models.

    PubMed

    Hunter, J; Henderson, M; Khan, I

    2007-01-01

    This paper describes the AnnoCryst system-a tool that was designed to enable authenticated collaborators to share online discussions about 3D crystallographic structures through the asynchronous attachment, storage, and retrieval of annotations. Annotations are personal comments, interpretations, questions, assessments, or references that can be attached to files, data, digital objects, or Web pages. The AnnoCryst system enables annotations to be attached to 3D crystallographic models retrieved from either private local repositories (e.g., Fedora) or public online databases (e.g., Protein Data Bank or Inorganic Crystal Structure Database) via a Web browser. The system uses the Jmol plugin for viewing and manipulating the 3D crystal structures but extends Jmol by providing an additional interface through which annotations can be created, attached, stored, searched, browsed, and retrieved. The annotations are stored on a standardized Web annotation server (Annotea), which has been extended to support 3D macromolecular structures. Finally, the system is embedded within a security framework that is capable of authenticating users and restricting access only to trusted colleagues.

  15. Efficient workflows for 3D building full-color model reconstruction using LIDAR long-range laser and image-based modeling techniques

    NASA Astrophysics Data System (ADS)

    Shih, Chihhsiong

    2005-01-01

    Two efficient workflow are developed for the reconstruction of a 3D full color building model. One uses a point wise sensing device to sample an unknown object densely and attach color textures from a digital camera separately. The other uses an image based approach to reconstruct the model with color texture automatically attached. The point wise sensing device reconstructs the CAD model using a modified best view algorithm that collects the maximum number of construction faces in one view. The partial views of the point clouds data are then glued together using a common face between two consecutive views. Typical overlapping mesh removal and coarsening procedures are adapted to generate a unified 3D mesh shell structure. A post processing step is then taken to combine the digital image content from a separate camera with the 3D mesh shell surfaces. An indirect uv mapping procedure first divide the model faces into groups within which every face share the same normal direction. The corresponding images of these faces in a group is then adjusted using the uv map as a guidance. The final assembled image is then glued back to the 3D mesh to present a full colored building model. The result is a virtual building that can reflect the true dimension and surface material conditions of a real world campus building. The image based modeling procedure uses a commercial photogrammetry package to reconstruct the 3D model. A novel view planning algorithm is developed to guide the photos taking procedure. This algorithm successfully generate a minimum set of view angles. The set of pictures taken at these view angles can guarantee that each model face shows up at least in two of the pictures set and no more than three. The 3D model can then be reconstructed with minimum amount of labor spent in correlating picture pairs. The finished model is compared with the original object in both the topological and dimensional aspects. All the test cases show exact same topology and

  16. Efficient workflows for 3D building full-color model reconstruction using LIDAR long-range laser and image-based modeling techniques

    NASA Astrophysics Data System (ADS)

    Shih, Chihhsiong

    2004-12-01

    Two efficient workflow are developed for the reconstruction of a 3D full color building model. One uses a point wise sensing device to sample an unknown object densely and attach color textures from a digital camera separately. The other uses an image based approach to reconstruct the model with color texture automatically attached. The point wise sensing device reconstructs the CAD model using a modified best view algorithm that collects the maximum number of construction faces in one view. The partial views of the point clouds data are then glued together using a common face between two consecutive views. Typical overlapping mesh removal and coarsening procedures are adapted to generate a unified 3D mesh shell structure. A post processing step is then taken to combine the digital image content from a separate camera with the 3D mesh shell surfaces. An indirect uv mapping procedure first divide the model faces into groups within which every face share the same normal direction. The corresponding images of these faces in a group is then adjusted using the uv map as a guidance. The final assembled image is then glued back to the 3D mesh to present a full colored building model. The result is a virtual building that can reflect the true dimension and surface material conditions of a real world campus building. The image based modeling procedure uses a commercial photogrammetry package to reconstruct the 3D model. A novel view planning algorithm is developed to guide the photos taking procedure. This algorithm successfully generate a minimum set of view angles. The set of pictures taken at these view angles can guarantee that each model face shows up at least in two of the pictures set and no more than three. The 3D model can then be reconstructed with minimum amount of labor spent in correlating picture pairs. The finished model is compared with the original object in both the topological and dimensional aspects. All the test cases show exact same topology and

  17. Sensing and compressing 3-D models

    SciTech Connect

    Krumm, J.

    1998-02-01

    The goal of this research project was to create a passive and robust computer vision system for producing 3-D computer models of arbitrary scenes. Although the authors were unsuccessful in achieving the overall goal, several components of this research have shown significant potential. Of particular interest is the application of parametric eigenspace methods for planar pose measurement of partially occluded objects in gray-level images. The techniques presented provide a simple, accurate, and robust solution to the planar pose measurement problem. In addition, the representational efficiency of eigenspace methods used with gray-level features were successfully extended to binary features, which are less sensitive to illumination changes. The results of this research are presented in two papers that were written during the course of this project. The papers are included in sections 2 and 3. The first section of this report summarizes the 3-D modeling efforts.

  18. 3-D physical models of amitosis (cytokinesis).

    PubMed

    Cheng, Kang; Zou, Changhua

    2005-01-01

    Based on Newton's laws, extended Coulomb's law and published biological data, we develop our 3-D physical models of natural and normal amitosis (cytokinesis), for prokaryotes (bacterial cells) in M phase. We propose following hypotheses: Chromosome rings exclusion: No normally and naturally replicated chromosome rings (RCR) can occupy the same prokaryote, a bacterial cell. The RCR produce spontaneous and strong electromagnetic fields (EMF), that can be alternated environmentally, in protoplasm and cortex. The EMF is approximately a repulsive quasi-static electric (slowly variant and mostly electric) field (EF). The EF forces between the RCR are strong enough, and orderly accumulate contractile proteins that divide the procaryotes in the cell cortex of division plane or directly split the cell compartment envelope longitudinally. The radial component of the EF forces could also make furrows or cleavages of procaryotes. The EF distribution controls the protoplasm partition and completes the amitosis (cytokinesis). After the cytokinesis, the spontaneous and strong EF disappear because the net charge accumulation becomes weak, in the protoplasm. The exclusion is because the two sets of informative objects (RCR) have identical DNA codes information and they are electro magnetically identical, therefore they repulse from each other. We also compare divisions among eukaryotes, prokaryotes, mitochondria and chloroplasts and propose our hypothesis: The principles of our models are applied to divisions of mitochondria and chloroplasts of eucaryotes too because these division mechanisms are closer than others in a view of physics. Though we develop our model using 1 division plane (i.e., 1 cell is divided into 2 cells) as an example, the principle of our model is applied to the cases with multiple division planes (i.e., 1 cell is divided into multiple cells) too.

  19. Robust hashing for 3D models

    NASA Astrophysics Data System (ADS)

    Berchtold, Waldemar; Schäfer, Marcel; Rettig, Michael; Steinebach, Martin

    2014-02-01

    3D models and applications are of utmost interest in both science and industry. With the increment of their usage, their number and thereby the challenge to correctly identify them increases. Content identification is commonly done by cryptographic hashes. However, they fail as a solution in application scenarios such as computer aided design (CAD), scientific visualization or video games, because even the smallest alteration of the 3D model, e.g. conversion or compression operations, massively changes the cryptographic hash as well. Therefore, this work presents a robust hashing algorithm for 3D mesh data. The algorithm applies several different bit extraction methods. They are built to resist desired alterations of the model as well as malicious attacks intending to prevent correct allocation. The different bit extraction methods are tested against each other and, as far as possible, the hashing algorithm is compared to the state of the art. The parameters tested are robustness, security and runtime performance as well as False Acceptance Rate (FAR) and False Rejection Rate (FRR), also the probability calculation of hash collision is included. The introduced hashing algorithm is kept adaptive e.g. in hash length, to serve as a proper tool for all applications in practice.

  20. A new 3D Moho depth model for Iran based on the terrestrial gravity data and EGM2008 model

    NASA Astrophysics Data System (ADS)

    Kiamehr, R.; Gómez-Ortiz, D.

    2009-04-01

    Knowledge of the variation of crustal thickness is essential in many applications, such as forward dynamic modelling, numerical heat flow calculations and seismologic applications. Dehghani in 1984 estimated the first Moho depth model over the Iranian plateau using the simple profiling method and Bouguer gravity data. However, these data are high deficiencies and lack of coverage in most part of the region. To provide a basis for an accurate analysis of the region's lithospheric stresses, we develop an up to date three dimensional crustal thickness model of the Iranian Plateau using Parker-Oldenburg iterative method. This method is based on a relationship between the Fourier transform of the gravity anomaly and the sum of the Fourier transform of the interface topography. The new model is based on the new and most complete gravity database of Iran which is produced by Kiamehr for computation of the high resolution geoid model for Iran. Total number of 26125 gravity data were collected from different sources and used for generation an outlier-free 2x2 minutes gravity database for Iran. At the mean time, the Earth Gravitational Model (EGM2008) up to degree 2160 has been developed and published by National Geospatial Intelligence Agency. EGM2008 incorporates improved 5x5 minutes gravity anomalies and has benefited from the latest GRACE based satellite solutions. The major benefit of the EGM2008 is its ability to provide precise and uniform gravity data with global data coverage. Two different Moho depth models have been computed based on the terrestrial and EGM2008 datasets. The minimum and maximum Moho depths for land and EGM2008 models are 10.85-53.86 and 15.41-51.43 km, respectively. In general, we found a good agreement between the Moho geometry obtained using both land and EGM2008 datasets with the RMS of 2.7 km. Also, we had a comparison between these gravimetric Moho models versus global seismic crustal models CRUST 2.0. The differences between EGM2008 and land

  1. Fallon FORGE 3D Geologic Model

    DOE Data Explorer

    Doug Blankenship

    2016-03-01

    An x,y,z scattered data file for the 3D geologic model of the Fallon FORGE site. Model created in Earthvision by Dynamic Graphic Inc. The model was constructed with a grid spacing of 100 m. Geologic surfaces were extrapolated from the input data using a minimum tension gridding algorithm. The data file is tabular data in a text file, with lithology data associated with X,Y,Z grid points. All the relevant information is in the file header (the spatial reference, the projection etc.) In addition all the fields in the data file are identified in the header.

  2. 3D Models of Symbiotic Binaries

    NASA Astrophysics Data System (ADS)

    Mohamed, S.; Booth, R.; Podsiadlowski, Ph.; Ramstedt, S.; Vlemmings, W.; Maercker, M.

    2015-12-01

    Symbiotic binaries consist of a cool, mass-losing giant and an accreting, compact companion. We present 3D Smoothed Particle Hydrodynamics (SPH) models of two such interacting binaries, RS Oph and Mira AB. RS Oph is also a recurrent nova system, thus we model multiple quiescent mass transfer-nova outburst cycles. The resulting circumstellar structures of both systems are highly complex with the formation of spirals, arcs, shells, equatorial and bipolar outflows. We compare the models to recent observations and discuss the implications of our results for related systems, e.g., bipolar nebulae and jets, chemically peculiar stars, and the progenitors of Type Ia supernovae.

  3. LLM3D: a log-linear modeling-based method to predict functional gene regulatory interactions from genome-wide expression data

    PubMed Central

    Geeven, Geert; MacGillavry, Harold D.; Eggers, Ruben; Sassen, Marion M.; Verhaagen, Joost; Smit, August B.; de Gunst, Mathisca C. M.; van Kesteren, Ronald E.

    2011-01-01

    All cellular processes are regulated by condition-specific and time-dependent interactions between transcription factors and their target genes. While in simple organisms, e.g. bacteria and yeast, a large amount of experimental data is available to support functional transcription regulatory interactions, in mammalian systems reconstruction of gene regulatory networks still heavily depends on the accurate prediction of transcription factor binding sites. Here, we present a new method, log-linear modeling of 3D contingency tables (LLM3D), to predict functional transcription factor binding sites. LLM3D combines gene expression data, gene ontology annotation and computationally predicted transcription factor binding sites in a single statistical analysis, and offers a methodological improvement over existing enrichment-based methods. We show that LLM3D successfully identifies novel transcriptional regulators of the yeast metabolic cycle, and correctly predicts key regulators of mouse embryonic stem cell self-renewal more accurately than existing enrichment-based methods. Moreover, in a clinically relevant in vivo injury model of mammalian neurons, LLM3D identified peroxisome proliferator-activated receptor γ (PPARγ) as a neuron-intrinsic transcriptional regulator of regenerative axon growth. In conclusion, LLM3D provides a significant improvement over existing methods in predicting functional transcription regulatory interactions in the absence of experimental transcription factor binding data. PMID:21422075

  4. 3D model of bow shocks

    NASA Astrophysics Data System (ADS)

    Gustafsson, M.; Ravkilde, T.; Kristensen, L. E.; Cabrit, S.; Field, D.; Pineau Des Forêts, G.

    2010-04-01

    Context. Shocks produced by outflows from young stars are often observed as bow-shaped structures in which the H2 line strength and morphology are characteristic of the physical and chemical environments and the velocity of the impact. Aims: We present a 3D model of interstellar bow shocks propagating in a homogeneous molecular medium with a uniform magnetic field. The model enables us to estimate the shock conditions in observed flows. As an example, we show how the model can reproduce rovibrational H2 observations of a bow shock in OMC1. Methods: The 3D model is constructed by associating a planar shock with every point on a 3D bow skeleton. The planar shocks are modelled with a highly sophisticated chemical reaction network that is essential for predicting accurate shock widths and line emissions. The shock conditions vary along the bow surface and determine the shock type, the local thickness, and brightness of the bow shell. The motion of the cooling gas parallel to the bow surface is also considered. The bow shock can move at an arbitrary inclination to the magnetic field and to the observer, and we model the projected morphology and radial velocity distribution in the plane-of-sky. Results: The morphology of a bow shock is highly dependent on the orientation of the magnetic field and the inclination of the flow. Bow shocks can appear in many different guises and do not necessarily show a characteristic bow shape. The ratio of the H2 v = 2-1 S(1) line to the v = 1-0 S(1) line is variable across the flow and the spatial offset between the peaks of the lines may be used to estimate the inclination of the flow. The radial velocity comes to a maximum behind the apparent apex of the bow shock when the flow is seen at an inclination different from face-on. Under certain circumstances the radial velocity of an expanding bow shock can show the same signatures as a rotating flow. In this case a velocity gradient perpendicular to the outflow direction is a projection

  5. Cognitive 3D geological voxel modelling based on AEM and seismic data - a case from the southern part of Denmark

    NASA Astrophysics Data System (ADS)

    Jørgensen, Flemming; Møller, Rasmus R.; Sandersen, Peter B. E.; Høyer, Anne-Sophie

    2013-04-01

    The highly complex composition of the Quaternary and Tertiary near-surface deposits in Denmark is a challenging environment for 3D modelling. Geological elements like cross-cutting buried valleys, faults, glaciotectonic thrusts and folds, delta units and erosional unconformities are vital to identify and include in 3D geological models, but at the same time they all add to the complexity of the geological picture. Borehole data are rarely sufficient for the modelling; instead much more laterally dense data are needed. Airborne electromagnetic techniques therefore serve as perfect tools for providing an overview and spatial distribution of the geological elements and their composition. Such airborne surveys are perfectly supplemented by seismic data in order to map the stratigraphic framework within a model area. Translating airborne electromagnetic data to geology is a complicated task that requires a significant amount of geophysical and geological insight. It is necessary to implement thorough geological background knowledge in the interpretations while at the same time identify and acknowledge the inherent limitations of the method. In an area covering 730 km2 across the border between Germany and Denmark a combination of an airborne transient electromagnetic survey (3200 line km performed with the SkyTEM system) and a 38 km high-resolution 2D seismic survey has proven very successful for mapping geological elements like the above-mentioned. Although the south-westernmost part of the study area is saturated with saltwater and the TEM data therefore are influenced by increased electrical conductivity, the geology is still revealed here. Geological interpretations are supported by a high number of pre-existing seismic sections originating from hydrocarbon exploration and borehole data, though most of the borehole data and several of the seismic sections have very poor quality. A couple of new 300-m deep exploration boreholes have been drilled in order to obtain

  6. 3D-model building of the jaw impression

    NASA Astrophysics Data System (ADS)

    Ahmed, Moumen T.; Yamany, Sameh M.; Hemayed, Elsayed E.; Farag, Aly A.

    1997-03-01

    A novel approach is proposed to obtain a record of the patient's occlusion using computer vision. Data acquisition is obtained using intra-oral video cameras. The technique utilizes shape from shading to extract 3D information from 2D views of the jaw, and a novel technique for 3D data registration using genetic algorithms. The resulting 3D model can be used for diagnosis, treatment planning, and implant purposes. The overall purpose of this research is to develop a model-based vision system for orthodontics to replace traditional approaches. This system will be flexible, accurate, and will reduce the cost of orthodontic treatments.

  7. Protein folding optimization based on 3D off-lattice model via an improved artificial bee colony algorithm.

    PubMed

    Li, Bai; Lin, Mu; Liu, Qiao; Li, Ya; Zhou, Changjun

    2015-10-01

    Protein folding is a fundamental topic in molecular biology. Conventional experimental techniques for protein structure identification or protein folding recognition require strict laboratory requirements and heavy operating burdens, which have largely limited their applications. Alternatively, computer-aided techniques have been developed to optimize protein structures or to predict the protein folding process. In this paper, we utilize a 3D off-lattice model to describe the original protein folding scheme as a simplified energy-optimal numerical problem, where all types of amino acid residues are binarized into hydrophobic and hydrophilic ones. We apply a balance-evolution artificial bee colony (BE-ABC) algorithm as the minimization solver, which is featured by the adaptive adjustment of search intensity to cater for the varying needs during the entire optimization process. In this work, we establish a benchmark case set with 13 real protein sequences from the Protein Data Bank database and evaluate the convergence performance of BE-ABC algorithm through strict comparisons with several state-of-the-art ABC variants in short-term numerical experiments. Besides that, our obtained best-so-far protein structures are compared to the ones in comprehensive previous literature. This study also provides preliminary insights into how artificial intelligence techniques can be applied to reveal the dynamics of protein folding. Graphical Abstract Protein folding optimization using 3D off-lattice model and advanced optimization techniques.

  8. GIS-based 3D modeling and visualization of the Mw7.7, 2007, Tocopilla aftershocks

    NASA Astrophysics Data System (ADS)

    Eggert, S.; Sobiesiak, M.

    2009-04-01

    The November 14, 2007 Mw 7.7 earthquake nucleated on the west coast of northern Chile about 40 km east of the city of Tocopilla. It took place in the southern part of the of a large seismic gap namely, the Iquique subduction zone segment which is supposed to be at the end of its seismic cycle. The Tocopilla fault plane appears to be the northern continuation of the Mw 8.0, 1995 Antofagasta earthquake. We present a complex 3D model of the rupture area including first hypocenter localizations of aftershocks following the event. The data was recorded during a mission of the German Task Force for Earthquakes after the 2007 Tocopilla earthquake. 34 seismic stations were recording the aftershocks from November 2007 until May 2008. In general, subduction zones have a complex structure where most of the volumes examined are characterized by strong variations in physical and material parameters and are far away from a homogeneously layered half space. Therefore, 3D representation of the geophysical and geological conditions to be found are of great importance to understand such a subduction environment. Using ArcScene as a three-dimensional modeling tool gives us the possibility to visualize the aftershock distribution along the subducting slab and identify clear structures and clusters within the data set. Furthermore we combine the 2007 Tocopilla data set with the 1995 Antofagasta aftershocks which provides a new, three-dimensional insight into the segment boundary of these two events.

  9. 3D Assessment of Mandibular Growth Based on Image Registration: A Feasibility Study in a Rabbit Model

    PubMed Central

    Kim, I.; Oliveira, M. E.; Duncan, W. J.; Cioffi, I.; Farella, M.

    2014-01-01

    Background. Our knowledge of mandibular growth mostly derives from cephalometric radiography, which has inherent limitations due to the two-dimensional (2D) nature of measurement. Objective. To assess 3D morphological changes occurring during growth in a rabbit mandible. Methods. Serial cone-beam computerised tomographic (CBCT) images were made of two New Zealand white rabbits, at baseline and eight weeks after surgical implantation of 1 mm diameter metallic spheres as fiducial markers. A third animal acted as an unoperated (no implant) control. CBCT images were segmented and registered in 3D (Implant Superimposition and Procrustes Method), and the remodelling pattern described used color maps. Registration accuracy was quantified by the maximal of the mean minimum distances and by the Hausdorff distance. Results. The mean error for image registration was 0.37 mm and never exceeded 1 mm. The implant-based superimposition showed most remodelling occurred at the mandibular ramus, with bone apposition posteriorly and vertical growth at the condyle. Conclusion. We propose a method to quantitatively describe bone remodelling in three dimensions, based on the use of bone implants as fiducial markers and CBCT as imaging modality. The method is feasible and represents a promising approach for experimental studies by comparing baseline growth patterns and testing the effects of growth-modification treatments. PMID:24527442

  10. In vivo 3D modeling of the femoropopliteal artery in human subjects based on x-ray angiography: Methodology and validation

    SciTech Connect

    Klein, Andrew J.; Casserly, Ivan P.; Messenger, John C.; Carroll, John D.; Chen, S.-Y. James

    2009-02-15

    Endovascular revascularization of the femoropopliteal (FP) artery has been limited by high rates of restenosis and stent fracture. The unique physical forces that are applied to the FP artery during leg movement have been implicated in these phenomena. The foundation for measuring the effects of physical forces on the FP artery in a clinically relevant environment is based on the ability to develop 3D models of this vessel in different leg positions in vivo in patients with peripheral arterial disease (PAD). By acquiring paired angiographic images of the FP artery, and using angiography-based 3D modeling algorithms previously validated in the coronary arteries, the authors generated 3D models of ten FP arteries in nine patients with PAD with the lower extremity in straight leg (SL) and crossed leg (CL) positions. Due to the length of the FP artery, overlapping paired angiographic images of the entire FP artery were required to image the entire vessel, which necessitated the development of a novel fusion process in order to generate a 3D model of the entire FP artery. The methodology of angiographic acquisition and 3D model generation of the FP artery is described. In a subset of patients, a third angiographic view (i.e., validation view) was acquired in addition to the standard paired views for the purpose of validating the 3D modeling process. The mean root-mean-square (rms) error of the point-to-point distances between the centerline of the main FP artery from the 2D validation view and the centerline from the 3D model placed in the validation view for the SL and CL positions were 0.93{+-}0.19 mm and 1.12{+-}0.25 mm, respectively. Similarly, the mean rms error of the same comparison for the main FP artery and sidebranches for the SL and CL positions were 1.09{+-}0.38 mm and 1.21{+-}0.25 mm, respectively. A separate validation of the novel fusion process was performed by comparing the 3D model of the FP artery derived from fusion of 3D models of adjacent FP

  11. A spherical harmonics intensity model for 3D segmentation and 3D shape analysis of heterochromatin foci.

    PubMed

    Eck, Simon; Wörz, Stefan; Müller-Ott, Katharina; Hahn, Matthias; Biesdorf, Andreas; Schotta, Gunnar; Rippe, Karsten; Rohr, Karl

    2016-08-01

    The genome is partitioned into regions of euchromatin and heterochromatin. The organization of heterochromatin is important for the regulation of cellular processes such as chromosome segregation and gene silencing, and their misregulation is linked to cancer and other diseases. We present a model-based approach for automatic 3D segmentation and 3D shape analysis of heterochromatin foci from 3D confocal light microscopy images. Our approach employs a novel 3D intensity model based on spherical harmonics, which analytically describes the shape and intensities of the foci. The model parameters are determined by fitting the model to the image intensities using least-squares minimization. To characterize the 3D shape of the foci, we exploit the computed spherical harmonics coefficients and determine a shape descriptor. We applied our approach to 3D synthetic image data as well as real 3D static and real 3D time-lapse microscopy images, and compared the performance with that of previous approaches. It turned out that our approach yields accurate 3D segmentation results and performs better than previous approaches. We also show that our approach can be used for quantifying 3D shape differences of heterochromatin foci.

  12. 3D Model of Surfactant Replacement Therapy

    NASA Astrophysics Data System (ADS)

    Grotberg, James; Tai, Cheng-Feng; Filoche, Marcel

    2015-11-01

    Surfactant Replacement Therapy (SRT) involves instillation of a liquid-surfactant mixture directly into the lung airway tree. Though successful in neonatal applications, its use in adults had early success followed by failure. We present the first mathematical model of 3D SRT where a liquid plug propagates through the tree from forced inspiration. In two separate modeling steps, the plug first deposits a coating film on the airway wall which subtracts from its volume, a ``coating cost''. Then the plug splits unevenly at the airway bifurcation due to gravity. The steps are repeated until a plug ruptures or reaches the tree endpoint alveoli/acinus. The model generates 3D images of the resulting acinar distribution and calculates two global indexes, efficiency and homogeneity. Simulating published literature, the earlier successful adult SRT studies show comparatively good index values, while the later failed studies do not. Those unsuccessful studies used smaller dose volumes with higher concentration mixtures, apparently assuming a well mixed compartment. The model shows that adult lungs are not well mixed in SRT due to the coating cost and gravity effects. Returning to the higher dose volume protocols could save many thousands of lives annually in the US. Supported by NIH Grants HL85156, HL84370 and Agence Nationale de la Recherche, ANR no. 2010-BLAN-1119-05.

  13. MOSSFRAC: An anisotropic 3D fracture model

    SciTech Connect

    Moss, W C; Levatin, J L

    2006-08-14

    Despite the intense effort for nearly half a century to construct detailed numerical models of plastic flow and plastic damage accumulation, models for describing fracture, an equally important damage mechanism still cannot describe basic fracture phenomena. Typical fracture models set the stress tensor to zero for tensile fracture and set the deviatoric stress tensor to zero for compressive fracture. One consequence is that the simple case of the tensile fracture of a cylinder under combined compressive radial and tensile axial loads is not modeled correctly. The experimental result is a cylinder that can support compressive radial loads, but no axial load, whereas, the typical numerical result is a cylinder with all stresses equal to zero. This incorrect modeling of fracture locally also has a global effect, because material that is fracturing produces stress release waves, which propagate from the fracture and influence the surrounding material. Consequently, it would be useful to have a model that can describe the stress relief and the resulting anisotropy due to fracture. MOSSFRAC is a material model that simulates three-dimensional tensile and shear fracture in initially isotropic elastic-plastic materials, although its framework is also amenable to initially anisotropic materials. It differs from other models by accounting for the effects of cracks on the constitutive response of the material, so that the previously described experiment, as well as complicated fracture scenarios are simulated more accurately. The model is implemented currently in the LLNL hydrocodes DYNA3D, PARADYN, and ALE3D. The purpose of this technical note is to present a complete qualitative description of the model and quantitative descriptions of salient features.

  14. A 3-dimensional micro- and nanoparticle transport and filtration model (MNM3D) applied to the migration of carbon-based nanomaterials in porous media

    NASA Astrophysics Data System (ADS)

    Bianco, Carlo; Tosco, Tiziana; Sethi, Rajandrea

    2016-10-01

    Engineered nanoparticles (NPs) in the environment can act both as contaminants, when they are unintentionally released, and as remediation agents when injected on purpose at contaminated sites. In this work two carbon-based NPs are considered, namely CARBO-IRON®, a new material developed for contaminated site remediation, and single layer graphene oxide (SLGO), a potential contaminant of the next future. Understanding and modeling the transport and deposition of such NPs in aquifer systems is a key aspect in both cases, and numerical models capable to simulate NP transport in groundwater in complex 3D scenarios are necessary. To this aim, this work proposes a modeling approach based on modified advection-dispersion-deposition equations accounting for the coupled influence of flow velocity and ionic strength on particle transport. A new modeling tool (MNM3D - Micro and Nanoparticle transport Model in 3D geometries) is presented for the simulation of NPs injection and transport in 3D scenarios. MNM3D is the result of the integration of the numerical code MNMs (Micro and Nanoparticle transport, filtration and clogging Model - Suite) in the well-known transport model RT3D (Clement et al., 1998). The injection in field-like conditions of CARBO-IRON® (20 g/l) amended by CMC (4 g/l) in a 2D vertical tank (0.7 × 1.0 × 0.12 m) was simulated using MNM3D, and compared to experimental results under the same conditions. Column transport tests of SLGO at a concentration (10 mg/l) representative of a possible spill of SLGO-containing waste water were performed at different values of ionic strength (0.1 to 35 mM), evidencing a strong dependence of SLGO transport on IS, and a reversible blocking deposition. The experimental data were fitted using the numerical code MNMs and the ionic strength-dependent transport was up-scaled for a full scale 3D simulation of SLGO release and long-term transport in a heterogeneous aquifer. MNM3D showed to potentially represent a valid tool for

  15. The Distributed Lambda (?) Model (DLM): A 3-D, Finite-Element Muscle Model Based on Feldman's ? Model; Assessment of Orofacial Gestures

    ERIC Educational Resources Information Center

    Nazari, Mohammad Ali; Perrier, Pascal; Payan, Yohan

    2013-01-01

    Purpose: The authors aimed to design a distributed lambda model (DLM), which is well adapted to implement three-dimensional (3-D), finite-element descriptions of muscles. Method: A muscle element model was designed. Its stress-strain relationships included the active force-length characteristics of the ? model along the muscle fibers, together…

  16. A time series generalized functional model based method for vibration-based damage precise localization in structures consisting of 1D, 2D, and 3D elements

    NASA Astrophysics Data System (ADS)

    Sakaris, C. S.; Sakellariou, J. S.; Fassois, S. D.

    2016-06-01

    This study focuses on the problem of vibration-based damage precise localization via data-based, time series type, methods for structures consisting of 1D, 2D, or 3D elements. A Generalized Functional Model Based method is postulated based on an expanded Vector-dependent Functionally Pooled ARX (VFP-ARX) model form, capable of accounting for an arbitrary structural topology. The FP model's operating parameter vector elements are properly constrained to reflect any given topology. Damage localization is based on operating parameter vector estimation within the specified topology, so that the location estimate and its uncertainty bounds are statistically optimal. The method's effectiveness is experimentally demonstrated through damage precise localization on a laboratory spatial truss structure using various damage scenarios and a single pair of random excitation - vibration response signals in a low and limited frequency bandwidth.

  17. Powder-based 3D printing for bone tissue engineering.

    PubMed

    Brunello, G; Sivolella, S; Meneghello, R; Ferroni, L; Gardin, C; Piattelli, A; Zavan, B; Bressan, E

    2016-01-01

    Bone tissue engineered 3-D constructs customized to patient-specific needs are emerging as attractive biomimetic scaffolds to enhance bone cell and tissue growth and differentiation. The article outlines the features of the most common additive manufacturing technologies (3D printing, stereolithography, fused deposition modeling, and selective laser sintering) used to fabricate bone tissue engineering scaffolds. It concentrates, in particular, on the current state of knowledge concerning powder-based 3D printing, including a description of the properties of powders and binder solutions, the critical phases of scaffold manufacturing, and its applications in bone tissue engineering. Clinical aspects and future applications are also discussed.

  18. Powder-based 3D printing for bone tissue engineering.

    PubMed

    Brunello, G; Sivolella, S; Meneghello, R; Ferroni, L; Gardin, C; Piattelli, A; Zavan, B; Bressan, E

    2016-01-01

    Bone tissue engineered 3-D constructs customized to patient-specific needs are emerging as attractive biomimetic scaffolds to enhance bone cell and tissue growth and differentiation. The article outlines the features of the most common additive manufacturing technologies (3D printing, stereolithography, fused deposition modeling, and selective laser sintering) used to fabricate bone tissue engineering scaffolds. It concentrates, in particular, on the current state of knowledge concerning powder-based 3D printing, including a description of the properties of powders and binder solutions, the critical phases of scaffold manufacturing, and its applications in bone tissue engineering. Clinical aspects and future applications are also discussed. PMID:27086202

  19. Formal representation of 3D structural geological models

    NASA Astrophysics Data System (ADS)

    Wang, Zhangang; Qu, Honggang; Wu, Zixing; Yang, Hongjun; Du, Qunle

    2016-05-01

    The development and widespread application of geological modeling methods has increased demands for the integration and sharing services of three dimensional (3D) geological data. However, theoretical research in the field of geological information sciences is limited despite the widespread use of Geographic Information Systems (GIS) in geology. In particular, fundamental research on the formal representations and standardized spatial descriptions of 3D structural models is required. This is necessary for accurate understanding and further applications of geological data in 3D space. In this paper, we propose a formal representation method for 3D structural models using the theory of point set topology, which produces a mathematical definition for the major types of geological objects. The spatial relationships between geologic boundaries, structures, and units are explained in detail using the 9-intersection model. Reasonable conditions for describing the topological space of 3D structural models are also provided. The results from this study can be used as potential support for the standardized representation and spatial quality evaluation of 3D structural models, as well as for specific needs related to model-based management, query, and analysis.

  20. Improving 3d Spatial Queries Search: Newfangled Technique of Space Filling Curves in 3d City Modeling

    NASA Astrophysics Data System (ADS)

    Uznir, U.; Anton, F.; Suhaibah, A.; Rahman, A. A.; Mioc, D.

    2013-09-01

    The advantages of three dimensional (3D) city models can be seen in various applications including photogrammetry, urban and regional planning, computer games, etc.. They expand the visualization and analysis capabilities of Geographic Information Systems on cities, and they can be developed using web standards. However, these 3D city models consume much more storage compared to two dimensional (2D) spatial data. They involve extra geometrical and topological information together with semantic data. Without a proper spatial data clustering method and its corresponding spatial data access method, retrieving portions of and especially searching these 3D city models, will not be done optimally. Even though current developments are based on an open data model allotted by the Open Geospatial Consortium (OGC) called CityGML, its XML-based structure makes it challenging to cluster the 3D urban objects. In this research, we propose an opponent data constellation technique of space-filling curves (3D Hilbert curves) for 3D city model data representation. Unlike previous methods, that try to project 3D or n-dimensional data down to 2D or 3D using Principal Component Analysis (PCA) or Hilbert mappings, in this research, we extend the Hilbert space-filling curve to one higher dimension for 3D city model data implementations. The query performance was tested using a CityGML dataset of 1,000 building blocks and the results are presented in this paper. The advantages of implementing space-filling curves in 3D city modeling will improve data retrieval time by means of optimized 3D adjacency, nearest neighbor information and 3D indexing. The Hilbert mapping, which maps a subinterval of the [0, 1] interval to the corresponding portion of the d-dimensional Hilbert's curve, preserves the Lebesgue measure and is Lipschitz continuous. Depending on the applications, several alternatives are possible in order to cluster spatial data together in the third dimension compared to its

  1. Performance Evaluation of 3d Modeling Software for Uav Photogrammetry

    NASA Astrophysics Data System (ADS)

    Yanagi, H.; Chikatsu, H.

    2016-06-01

    UAV (Unmanned Aerial Vehicle) photogrammetry, which combines UAV and freely available internet-based 3D modeling software, is widely used as a low-cost and user-friendly photogrammetry technique in the fields such as remote sensing and geosciences. In UAV photogrammetry, only the platform used in conventional aerial photogrammetry is changed. Consequently, 3D modeling software contributes significantly to its expansion. However, the algorithms of the 3D modelling software are black box algorithms. As a result, only a few studies have been able to evaluate their accuracy using 3D coordinate check points. With this motive, Smart3DCapture and Pix4Dmapper were downloaded from the Internet and commercial software PhotoScan was also employed; investigations were performed in this paper using check points and images obtained from UAV.

  2. Isolated tree 3D modeling: based on photographing leaf area density(LAD) calculation and L-system method

    NASA Astrophysics Data System (ADS)

    Jin, Shengye; Tamura, Masayuki

    2012-10-01

    In this paper we developed a 3D L-System tree model which expresses the leaf area density (LAD). As a key parameter, which conveys the thickness degree of the canopy and interaction capacity between a tree and the atmosphere, LAD is an important aspect in radiation transfer modeling within the vegetation canopy during the last decades. For modeling a tree, L-System is a good application which explains the internal canopy structure in detail. In the study, we developed the tree model in 3 steps. First we took photographs from eight directions using a commercial digital camera, and then extracted the canopy gap fraction. Secondly, we collected the sample camphor tree's leaf angles in the field for getting the leaf angle density function and computed the G-function from leaf angle density. We calculated the sample tree's LAD by Beer-Lambert's law. LAI-2000 instrument was the standard data source provider for evaluating the photographing method's LAD result. We set the L-System tree parameters in order to coincide with the real tree. The tree model visualization was performed by using POV-Ray v3.60. The eight directions photographing method's LAD result (0.54) was significantly close with the LAI-2000 adjusted data (0.52). Similarly the L-system tree models LAD mean value for 1000 samples was observed to be 0.54 which is close to the validation results.

  3. SB3D User Manual, Santa Barbara 3D Radiative Transfer Model

    SciTech Connect

    O'Hirok, William

    1999-01-01

    SB3D is a three-dimensional atmospheric and oceanic radiative transfer model for the Solar spectrum. The microphysics employed in the model are the same as used in the model SBDART. It is assumed that the user of SB3D is familiar with SBDART and IDL. SB3D differs from SBDART in that computations are conducted on media in three-dimensions rather than a single column (i.e. plane-parallel), and a stochastic method (Monte Carlo) is employed instead of a numerical approach (Discrete Ordinates) for estimating a solution to the radiative transfer equation. Because of these two differences between SB3D and SBDART, the input and running of SB3D is more unwieldy and requires compromises between model performance and computational expense. Hence, there is no one correct method for running the model and the user must develop a sense to the proper input and configuration of the model.

  4. Automatic Texture Mapping of Architectural and Archaeological 3d Models

    NASA Astrophysics Data System (ADS)

    Kersten, T. P.; Stallmann, D.

    2012-07-01

    Today, detailed, complete and exact 3D models with photo-realistic textures are increasingly demanded for numerous applications in architecture and archaeology. Manual texture mapping of 3D models by digital photographs with software packages, such as Maxon Cinema 4D, Autodesk 3Ds Max or Maya, still requires a complex and time-consuming workflow. So, procedures for automatic texture mapping of 3D models are in demand. In this paper two automatic procedures are presented. The first procedure generates 3D surface models with textures by web services, while the second procedure textures already existing 3D models with the software tmapper. The program tmapper is based on the Multi Layer 3D image (ML3DImage) algorithm and developed in the programming language C++. The studies showing that the visibility analysis using the ML3DImage algorithm is not sufficient to obtain acceptable results of automatic texture mapping. To overcome the visibility problem the Point Cloud Painter algorithm in combination with the Z-buffer-procedure will be applied in the future.

  5. Pharmacophore modeling and atom-based 3D-QSAR studies on amino derivatives of indole as potent isoprenylcysteine carboxyl methyltransferase (Icmt) inhibitors

    NASA Astrophysics Data System (ADS)

    Bhadoriya, Kamlendra Singh; Sharma, Mukesh C.; Jain, Shailesh V.

    2015-02-01

    Icmt enzymes are of particular importance in the post-translational modification of proteins that are involved in the regulation of cell growth. Thus, effective Icmt inhibitors may be of significant therapeutic importance in oncogenesis. To determine the structural requirements responsible for high affinity of previously reported amino derivatives of indole as Icmt inhibitors, a successful pharmacophore generation and atom-based 3D-QSAR analysis have been carried out. The best four-point pharmacophore model with four features HHRR: two hydrophobic groups (H) and two aromatic rings (R) as pharmacophore features was developed by PHASE module of Schrodinger suite. In this study, highly predictive 3D-QSAR models have been developed for Icmt inhibition using HHRR.191 hypothesis. The pharmacophore hypothesis yielded a 3D-QSAR model with good partial least-square (PLS) statistics results. The validation of the PHASE model was done by dividing the dataset into training and test set. The statistically significant the four-point pharmacophore hypothesis yielded a 3D-QSAR model with good PLS statistics results (R2 = 0.9387, Q2 = 0.8132, F = 114.8, SD = 0.1567, RMSE = 0.2682, Pearson-R = 0.9147). The generated model showed excellent predictive power, with a correlation coefficient of Q2 = 0.8132. The results of ligand-based pharmacophore hypothesis and atom-based 3D-QSAR provide detailed structural insights as well as highlights important binding features of novel amino derivatives of indole as Icmt inhibitors which can afford guidance for the rational drug design of novel, potent and promising Icmt inhibitors with enhanced potencies and may prove helpful for further lead optimization and virtual screening.

  6. Characterization of tissue response to radiofrequency ablation using 3D model-based analysis of interventional MR images

    NASA Astrophysics Data System (ADS)

    Weinberg, Brent D.; Lazebnik, Roee S.; Breen, Michael S.; Lewin, Jonathan S.; Wilson, David L.

    2003-05-01

    Using magnetic resonance imaging (MRI), real-time guidance is feasible for radiofrequency (RF) current ablation of pathologic tissue. Lesions have a characteristic two-zone appearance: an inner core (Zone I) surrounded by a hyper-intense rim (Zone II). A better understanding of both the immediate (hyper-acute) and delayed (sub-acute) physiological response of the target tissue will aid development of minimally invasive tumor treatment strategies. We performed in vivo RF ablations in a rabbit thigh model and characterized the tissue response to treatment through contrast enhanced (CE) T1 and T2 weighted MR images at two time points. We measured zonal grayscale changes as well as zone volume changes using a 3D computationally fitted globally deformable parametric model. Comparison over time demonstrated an increase in the volume of both the inner necrotic core (mean 56.5% increase) and outer rim (mean 16.8% increase) of the lesion. Additionally, T2 images of the lesion exhibited contrast greater than or equal to CE T1 (mean 35% improvement). This work establishes a foundation for the clinical use of T2 MR images coupled with a geometric model of the ablation for noninvasive lesion monitoring and characterization.

  7. 3D Progressive Damage Modeling for Laminated Composite Based on Crack Band Theory and Continuum Damage Mechanics

    NASA Technical Reports Server (NTRS)

    Wang, John T.; Pineda, Evan J.; Ranatunga, Vipul; Smeltzer, Stanley S.

    2015-01-01

    A simple continuum damage mechanics (CDM) based 3D progressive damage analysis (PDA) tool for laminated composites was developed and implemented as a user defined material subroutine to link with a commercially available explicit finite element code. This PDA tool uses linear lamina properties from standard tests, predicts damage initiation with an easy-to-implement Hashin-Rotem failure criteria, and in the damage evolution phase, evaluates the degradation of material properties based on the crack band theory and traction-separation cohesive laws. It follows Matzenmiller et al.'s formulation to incorporate the degrading material properties into the damaged stiffness matrix. Since nonlinear shear and matrix stress-strain relations are not implemented, correction factors are used for slowing the reduction of the damaged shear stiffness terms to reflect the effect of these nonlinearities on the laminate strength predictions. This CDM based PDA tool is implemented as a user defined material (VUMAT) to link with the Abaqus/Explicit code. Strength predictions obtained, using this VUMAT, are correlated with test data for a set of notched specimens under tension and compression loads.

  8. Application of Technical Measures and Software in Constructing Photorealistic 3D Models of Historical Building Using Ground-Based and Aerial (UAV) Digital Images

    NASA Astrophysics Data System (ADS)

    Zarnowski, Aleksander; Banaszek, Anna; Banaszek, Sebastian

    2015-12-01

    Preparing digital documentation of historical buildings is a form of protecting cultural heritage. Recently there have been several intensive studies using non-metric digital images to construct realistic 3D models of historical buildings. Increasingly often, non-metric digital images are obtained with unmanned aerial vehicles (UAV). Technologies and methods of UAV flights are quite different from traditional photogrammetric approaches. The lack of technical guidelines for using drones inhibits the process of implementing new methods of data acquisition. This paper presents the results of experiments in the use of digital images in the construction of photo-realistic 3D model of a historical building (Raphaelsohns' Sawmill in Olsztyn). The aim of the study at the first stage was to determine the meteorological and technical conditions for the acquisition of aerial and ground-based photographs. At the next stage, the technology of 3D modelling was developed using only ground-based or only aerial non-metric digital images. At the last stage of the study, an experiment was conducted to assess the possibility of 3D modelling with the comprehensive use of aerial (UAV) and ground-based digital photographs in terms of their labour intensity and precision of development. Data integration and automatic photo-realistic 3D construction of the models was done with Pix4Dmapper and Agisoft PhotoScan software Analyses have shown that when certain parameters established in an experiment are kept, the process of developing the stock-taking documentation for a historical building moves from the standards of analogue to digital technology with considerably reduced cost.

  9. Improving Semantic Updating Method on 3d City Models Using Hybrid Semantic-Geometric 3d Segmentation Technique

    NASA Astrophysics Data System (ADS)

    Sharkawi, K.-H.; Abdul-Rahman, A.

    2013-09-01

    Cities and urban areas entities such as building structures are becoming more complex as the modern human civilizations continue to evolve. The ability to plan and manage every territory especially the urban areas is very important to every government in the world. Planning and managing cities and urban areas based on printed maps and 2D data are getting insufficient and inefficient to cope with the complexity of the new developments in big cities. The emergence of 3D city models have boosted the efficiency in analysing and managing urban areas as the 3D data are proven to represent the real world object more accurately. It has since been adopted as the new trend in buildings and urban management and planning applications. Nowadays, many countries around the world have been generating virtual 3D representation of their major cities. The growing interest in improving the usability of 3D city models has resulted in the development of various tools for analysis based on the 3D city models. Today, 3D city models are generated for various purposes such as for tourism, location-based services, disaster management and urban planning. Meanwhile, modelling 3D objects are getting easier with the emergence of the user-friendly tools for 3D modelling available in the market. Generating 3D buildings with high accuracy also has become easier with the availability of airborne Lidar and terrestrial laser scanning equipments. The availability and accessibility to this technology makes it more sensible to analyse buildings in urban areas using 3D data as it accurately represent the real world objects. The Open Geospatial Consortium (OGC) has accepted CityGML specifications as one of the international standards for representing and exchanging spatial data, making it easier to visualize, store and manage 3D city models data efficiently. CityGML able to represents the semantics, geometry, topology and appearance of 3D city models in five well-defined Level-of-Details (LoD), namely LoD0

  10. APT Blanket Detailed Bin Model Based on Initial Plate-Type Design -3D FLOWTRAN-TF Model

    SciTech Connect

    Hamm, L.L.

    1998-10-07

    This report provides background information for a series of reports documenting accident scenario simulations for the Accelerator Production of Tritium (APT) blanket heat removal systems. The simulations were performed in support of the Preliminary Safety Analysis Report for the APT. This report gives a brief description of the FLOWTRAN-TF code which was used for detailed blanket bin modeling.

  11. Potential of 3D City Models to assess flood vulnerability

    NASA Astrophysics Data System (ADS)

    Schröter, Kai; Bochow, Mathias; Schüttig, Martin; Nagel, Claus; Ross, Lutz; Kreibich, Heidi

    2016-04-01

    Vulnerability, as the product of exposure and susceptibility, is a key factor of the flood risk equation. Furthermore, the estimation of flood loss is very sensitive to the choice of the vulnerability model. Still, in contrast to elaborate hazard simulations, vulnerability is often considered in a simplified manner concerning the spatial resolution and geo-location of exposed objects as well as the susceptibility of these objects at risk. Usually, area specific potential flood loss is quantified on the level of aggregated land-use classes, and both hazard intensity and resistance characteristics of affected objects are represented in highly simplified terms. We investigate the potential of 3D City Models and spatial features derived from remote sensing data to improve the differentiation of vulnerability in flood risk assessment. 3D City Models are based on CityGML, an application scheme of the Geography Markup Language (GML), which represents the 3D geometry, 3D topology, semantics and appearance of objects on different levels of detail. As such, 3D City Models offer detailed spatial information which is useful to describe the exposure and to characterize the susceptibility of residential buildings at risk. This information is further consolidated with spatial features of the building stock derived from remote sensing data. Using this database a spatially detailed flood vulnerability model is developed by means of data-mining. Empirical flood damage data are used to derive and to validate flood susceptibility models for individual objects. We present first results from a prototype application in the city of Dresden, Germany. The vulnerability modeling based on 3D City Models and remote sensing data is compared i) to the generally accepted good engineering practice based on area specific loss potential and ii) to a highly detailed representation of flood vulnerability based on a building typology using urban structure types. Comparisons are drawn in terms of

  12. Biofunctionalization of electrospun PCL-based scaffolds with perlecan domain IV peptide to create a 3-D pharmacokinetic cancer model

    PubMed Central

    Hartman, Olga; Zhang, Chu; Adams, Elizabeth L.; Farach-Carson, Mary C.; Petrelli, Nicholas J.; Chase, Bruce D.; Rabolt, John F.

    2010-01-01

    Because prostate cancer cells metastasize to bone and exhibit osteoblastic features (osteomimicry), the interrelationships between bone-specific microenvironment and prostate cancer cells at sites of bone metastasis are critical to disease progression. In this work the bone marrow microenvironment in vitro was recreated both by tailoring scaffolds physical properties and by functionalizing electrospun polymer fibers with a bioactive peptide derived from domain IV of perlecan heparan sulfate proteoglycan. Electrospun poly (ε-caprolactone) (PCL) fibers and PCL/gelatin composite scaffolds were modified covalently with perlecan domain IV (PlnDIV) peptide. The expression of tight junction protein (E-cadherin) and focal adhesion kinase (FAK) phosphorylation on tyrosine 397 also were investigated. The described bioactive motif significantly enhanced adherence and infiltration of the metastatic prostate cancer cells on all modified electrospun substrates by day 5 post-seeding. Cells cultured on PlnDIV-modified matrices organized stress fibers and increased proliferation at statistically significant rates. Additional findings suggest that presence of PlnDIV peptide in the matrix reduced expression of tight junction protein and binding to PlnDIV peptide was accompanied by increased focal adhesion kinase (FAK) phosphorylation on tyrosine 397. We conclude that PlnDIV peptide supports key signaling events leading to proliferation, survival, and migration of C4-2B cancer cells; hence its incorporation into electrospun matrix is a key improvement to create a successful three-dimensional (3-D) pharmacokinetic cancer model. PMID:20417554

  13. Geospatial Modelling Approach for 3d Urban Densification Developments

    NASA Astrophysics Data System (ADS)

    Koziatek, O.; Dragićević, S.; Li, S.

    2016-06-01

    With growing populations, economic pressures, and the need for sustainable practices, many urban regions are rapidly densifying developments in the vertical built dimension with mid- and high-rise buildings. The location of these buildings can be projected based on key factors that are attractive to urban planners, developers, and potential buyers. Current research in this area includes various modelling approaches, such as cellular automata and agent-based modelling, but the results are mostly linked to raster grids as the smallest spatial units that operate in two spatial dimensions. Therefore, the objective of this research is to develop a geospatial model that operates on irregular spatial tessellations to model mid- and high-rise buildings in three spatial dimensions (3D). The proposed model is based on the integration of GIS, fuzzy multi-criteria evaluation (MCE), and 3D GIS-based procedural modelling. Part of the City of Surrey, within the Metro Vancouver Region, Canada, has been used to present the simulations of the generated 3D building objects. The proposed 3D modelling approach was developed using ESRI's CityEngine software and the Computer Generated Architecture (CGA) language.

  14. A volumetric model-based 2D to 3D registration method for measuring kinematics of natural knees with single-plane fluoroscopy

    SciTech Connect

    Tsai, Tsung-Yuan; Lu, Tung-Wu; Chen, Chung-Ming; Kuo, Mei-Ying; Hsu, Horng-Chaung

    2010-03-15

    Purpose: Accurate measurement of the three-dimensional (3D) rigid body and surface kinematics of the natural human knee is essential for many clinical applications. Existing techniques are limited either in their accuracy or lack more realistic experimental evaluation of the measurement errors. The purposes of the study were to develop a volumetric model-based 2D to 3D registration method, called the weighted edge-matching score (WEMS) method, for measuring natural knee kinematics with single-plane fluoroscopy to determine experimentally the measurement errors and to compare its performance with that of pattern intensity (PI) and gradient difference (GD) methods. Methods: The WEMS method gives higher priority to matching of longer edges of the digitally reconstructed radiograph and fluoroscopic images. The measurement errors of the methods were evaluated based on a human cadaveric knee at 11 flexion positions. Results: The accuracy of the WEMS method was determined experimentally to be less than 0.77 mm for the in-plane translations, 3.06 mm for out-of-plane translation, and 1.13 deg. for all rotations, which is better than that of the PI and GD methods. Conclusions: A new volumetric model-based 2D to 3D registration method has been developed for measuring 3D in vivo kinematics of natural knee joints with single-plane fluoroscopy. With the equipment used in the current study, the accuracy of the WEMS method is considered acceptable for the measurement of the 3D kinematics of the natural knee in clinical applications.

  15. Improved 3D density modelling of the Central Andes from combining terrestrial datasets with satellite based datasets

    NASA Astrophysics Data System (ADS)

    Schaller, Theresa; Sobiesiak, Monika; Götze, Hans-Jürgen; Ebbing, Jörg

    2015-04-01

    As horizontal gravity gradients are proxies for large stresses, the uniquely high gravity gradients of the South American continental margin seem to be indicative for the frequently occurring large earthquakes at this plate boundary. It has been observed that these earthquakes can break repeatedly the same respective segment but can also combine to form M>9 earthquakes at the end of longer seismic cycles. A large seismic gap left behind by the 1877 M~9 earthquake existed in the northernmost part of Chile. This gap has partially been ruptured in the Mw 7.7 2007 Tocopilla earthquake and the Mw 8.2 2014 Pisagua earthquake. The nature of this seismological segmentation and the distribution of energy release in an earthquake is part of ongoing research. It can be assumed that both features are related to thickness variations of high density bodies located in the continental crust of the coastal area. These batholiths produce a clear maximum in the gravity signal. Those maxima also show a good spatial correlation with seismic asperity structures and seismological segment boundaries. Understanding of the tectonic situation can be improved through 3D forward density modelling of the gravity field. Problems arise in areas with less ground measurements. Especially in the high Andes severe gaps exist due to the inaccessibility of some regions. Also the transition zone between on and offshore date data displays significant problems, particularly since this is the area that is most interesting in terms of seismic hazard. We modelled the continental and oceanic crust and upper mantle using different gravity datasets. The first one includes terrestrial data measured at a station spacing of 5 km or less along all passable roads combined with satellite altimetry data offshore. The second data set is the newly released EIGEN-6C4 which combines the latest satellite data with ground measurements. The spherical harmonics maximum degree of EIGEN-6C4 is 2190 which corresponds to a

  16. Parallel Optimization of 3D Cardiac Electrophysiological Model Using GPU

    PubMed Central

    Xia, Yong; Wang, Kuanquan; Zhang, Henggui

    2015-01-01

    Large-scale 3D virtual heart model simulations are highly demanding in computational resources. This imposes a big challenge to the traditional computation resources based on CPU environment, which already cannot meet the requirement of the whole computation demands or are not easily available due to expensive costs. GPU as a parallel computing environment therefore provides an alternative to solve the large-scale computational problems of whole heart modeling. In this study, using a 3D sheep atrial model as a test bed, we developed a GPU-based simulation algorithm to simulate the conduction of electrical excitation waves in the 3D atria. In the GPU algorithm, a multicellular tissue model was split into two components: one is the single cell model (ordinary differential equation) and the other is the diffusion term of the monodomain model (partial differential equation). Such a decoupling enabled realization of the GPU parallel algorithm. Furthermore, several optimization strategies were proposed based on the features of the virtual heart model, which enabled a 200-fold speedup as compared to a CPU implementation. In conclusion, an optimized GPU algorithm has been developed that provides an economic and powerful platform for 3D whole heart simulations. PMID:26581957

  17. 3D Structure Prediction of Human β1-Adrenergic Receptor via Threading-Based Homology Modeling for Implications in Structure-Based Drug Designing

    PubMed Central

    Ul-Haq, Zaheer; Saeed, Maria; Halim, Sobia Ahsan; Khan, Waqasuddin

    2015-01-01

    Dilated cardiomyopathy is a disease of left ventricular dysfunction accompanied by impairment of the β1-adrenergic receptor (β1-AR) signal cascade. The disturbed β1-AR function may be based on an elevated sympathetic tone observed in patients with heart failure. Prolonged adrenergic stimulation may induce metabolic and electrophysiological disturbances in the myocardium, resulting in tachyarrhythmia that leads to the development of heart failure in human and sudden death. Hence, β1-AR is considered as a promising drug target but attempts to develop effective and specific drug against this tempting pharmaceutical target is slowed down due to the lack of 3D structure of Homo sapiens β1-AR (hsβADR1). This study encompasses elucidation of 3D structural and physicochemical properties of hsβADR1 via threading-based homology modeling. Furthermore, the docking performance of several docking programs including Surflex-Dock, FRED, and GOLD were validated by re-docking and cross-docking experiments. GOLD and Surflex-Dock performed best in re-docking and cross docking experiments, respectively. Consequently, Surflex-Dock was used to predict the binding modes of four hsβADR1 agonists. This study provides clear understanding of hsβADR1 structure and its binding mechanism, thus help in providing the remedial solutions of cardiovascular, effective treatment of asthma and other diseases caused by malfunctioning of the target protein. PMID:25860348

  18. 3D structure prediction of human β1-adrenergic receptor via threading-based homology modeling for implications in structure-based drug designing.

    PubMed

    Ul-Haq, Zaheer; Saeed, Maria; Halim, Sobia Ahsan; Khan, Waqasuddin

    2015-01-01

    Dilated cardiomyopathy is a disease of left ventricular dysfunction accompanied by impairment of the β1-adrenergic receptor (β1-AR) signal cascade. The disturbed β1-AR function may be based on an elevated sympathetic tone observed in patients with heart failure. Prolonged adrenergic stimulation may induce metabolic and electrophysiological disturbances in the myocardium, resulting in tachyarrhythmia that leads to the development of heart failure in human and sudden death. Hence, β1-AR is considered as a promising drug target but attempts to develop effective and specific drug against this tempting pharmaceutical target is slowed down due to the lack of 3D structure of Homo sapiens β1-AR (hsβADR1). This study encompasses elucidation of 3D structural and physicochemical properties of hsβADR1 via threading-based homology modeling. Furthermore, the docking performance of several docking programs including Surflex-Dock, FRED, and GOLD were validated by re-docking and cross-docking experiments. GOLD and Surflex-Dock performed best in re-docking and cross docking experiments, respectively. Consequently, Surflex-Dock was used to predict the binding modes of four hsβADR1 agonists. This study provides clear understanding of hsβADR1 structure and its binding mechanism, thus help in providing the remedial solutions of cardiovascular, effective treatment of asthma and other diseases caused by malfunctioning of the target protein. PMID:25860348

  19. Triangulation-based 3D surveying borescope

    NASA Astrophysics Data System (ADS)

    Pulwer, S.; Steglich, P.; Villringer, C.; Bauer, J.; Burger, M.; Franz, M.; Grieshober, K.; Wirth, F.; Blondeau, J.; Rautenberg, J.; Mouti, S.; Schrader, S.

    2016-04-01

    In this work, a measurement concept based on triangulation was developed for borescopic 3D-surveying of surface defects. The integration of such measurement system into a borescope environment requires excellent space utilization. The triangulation angle, the projected pattern, the numerical apertures of the optical system, and the viewing angle were calculated using partial coherence imaging and geometric optical raytracing methods. Additionally, optical aberrations and defocus were considered by the integration of Zernike polynomial coefficients. The measurement system is able to measure objects with a size of 50 μm in all dimensions with an accuracy of +/- 5 μm. To manage the issue of a low depth of field while using an optical high resolution system, a wavelength dependent aperture was integrated. Thereby, we are able to control depth of field and resolution of the optical system and can use the borescope in measurement mode with high resolution and low depth of field or in inspection mode with low resolution and higher depth of field. First measurements of a demonstrator system are in good agreement with our simulations.

  20. 3D Models of Stellar Interactions

    NASA Astrophysics Data System (ADS)

    Mohamed, S.; Podsiadlowski, Ph.; Booth, R.; Maercker, M.; Ramstedt, S.; Vlemmings, W.; Harries, T.; Mackey, J.; Langer, N.; Corradi, R.

    2014-04-01

    Symbiotic binaries consist of a cool, evolved mass-losing giant and an accreting compact companion. As symbiotic nebulae show similar morphologies to those in planetary nebulae (so much so that it is often difficult to distinguish between the two), they are ideal laboratories for understanding the role a binary companion plays in shaping the circumstellar envelopes in these evolved systems. We will present 3D Smoothed Particle Hydrodynamics (SPH) models of interacting binaries, e.g. R Aquarii and Mira, and discuss the formation of spiral outflows, arcs, shells and equatorial density enhancements.We will also discuss the implications of the former for planetary nebulae, e.g. the Egg Nebula and Cat's Eye, and the latter for the formation of bipolar geometries, e.g. M2-9. We also investigate accretion and angular momentum evolution in symbiotic binaries which may be important to understand the formation of jets and more episodic mass-loss features we see in circumstellar envelopes and the orbital characteristics of binary central stars of planetary nebulae.

  1. Quality of 3D Models Generated by SFM Technology

    NASA Astrophysics Data System (ADS)

    Marčiš, Marián

    2013-12-01

    Using various types of automation in digital photogrammetry is associated with questions such as the accuracy of a 3D model generated on various types of surfaces and textures, the financial costs of the equipment needed, and also the time costs of the processing. This topic deals with the actual technology of computer vision, which allows the automated exterior orientation of images, camera calibration, and the generation of 3D models directly from images of the object itself, based on the automatic detection of significant points. Detailed testing is done using the Agisoft PhotoScan system, and the camera configuration is solved with respect to the accuracy of the 3D model generated and the time consumption of the calculations for the different types of textures and the different settings for the processing.

  2. 3D shape decomposition and comparison for gallbladder modeling

    NASA Astrophysics Data System (ADS)

    Huang, Weimin; Zhou, Jiayin; Liu, Jiang; Zhang, Jing; Yang, Tao; Su, Yi; Law, Gim Han; Chui, Chee Kong; Chang, Stephen

    2011-03-01

    This paper presents an approach to gallbladder shape comparison by using 3D shape modeling and decomposition. The gallbladder models can be used for shape anomaly analysis and model comparison and selection in image guided robotic surgical training, especially for laparoscopic cholecystectomy simulation. The 3D shape of a gallbladder is first represented as a surface model, reconstructed from the contours segmented in CT data by a scheme of propagation based voxel learning and classification. To better extract the shape feature, the surface mesh is further down-sampled by a decimation filter and smoothed by a Taubin algorithm, followed by applying an advancing front algorithm to further enhance the regularity of the mesh. Multi-scale curvatures are then computed on the regularized mesh for the robust saliency landmark localization on the surface. The shape decomposition is proposed based on the saliency landmarks and the concavity, measured by the distance from the surface point to the convex hull. With a given tolerance the 3D shape can be decomposed and represented as 3D ellipsoids, which reveal the shape topology and anomaly of a gallbladder. The features based on the decomposed shape model are proposed for gallbladder shape comparison, which can be used for new model selection. We have collected 19 sets of abdominal CT scan data with gallbladders, some shown in normal shape and some in abnormal shapes. The experiments have shown that the decomposed shapes reveal important topology features.

  3. Design of AN Intelligent Individual Evacuation Model for High Rise Building Fires Based on Neural Network Within the Scope of 3d GIS

    NASA Astrophysics Data System (ADS)

    Atila, U.; Karas, I. R.; Turan, M. K.; Rahman, A. A.

    2013-09-01

    One of the most dangerous disaster threatening the high rise and complex buildings of today's world including thousands of occupants inside is fire with no doubt. When we consider high population and the complexity of such buildings it is clear to see that performing a rapid and safe evacuation seems hard and human being does not have good memories in case of such disasters like world trade center 9/11. Therefore, it is very important to design knowledge based realtime interactive evacuation methods instead of classical strategies which lack of flexibility. This paper presents a 3D-GIS implementation which simulates the behaviour of an intelligent indoor pedestrian navigation model proposed for a self -evacuation of a person in case of fire. The model is based on Multilayer Perceptron (MLP) which is one of the most preferred artificial neural network architecture in classification and prediction problems. A sample fire scenario following through predefined instructions has been performed on 3D model of the Corporation Complex in Putrajaya (Malaysia) and the intelligent evacuation process has been realized within a proposed 3D-GIS based simulation.

  4. Performance and Cognitive Assessment in 3-D Modeling

    ERIC Educational Resources Information Center

    Fahrer, Nolan E.; Ernst, Jeremy V.; Branoff, Theodore J.; Clark, Aaron C.

    2011-01-01

    The purpose of this study was to investigate identifiable differences between performance and cognitive assessment scores in a 3-D modeling unit of an engineering drafting course curriculum. The study aimed to provide further investigation of the need of skill-based assessments in engineering/technical graphics courses to potentially increase…

  5. 3D-GNOME: an integrated web service for structural modeling of the 3D genome.

    PubMed

    Szalaj, Przemyslaw; Michalski, Paul J; Wróblewski, Przemysław; Tang, Zhonghui; Kadlof, Michal; Mazzocco, Giovanni; Ruan, Yijun; Plewczynski, Dariusz

    2016-07-01

    Recent advances in high-throughput chromosome conformation capture (3C) technology, such as Hi-C and ChIA-PET, have demonstrated the importance of 3D genome organization in development, cell differentiation and transcriptional regulation. There is now a widespread need for computational tools to generate and analyze 3D structural models from 3C data. Here we introduce our 3D GeNOme Modeling Engine (3D-GNOME), a web service which generates 3D structures from 3C data and provides tools to visually inspect and annotate the resulting structures, in addition to a variety of statistical plots and heatmaps which characterize the selected genomic region. Users submit a bedpe (paired-end BED format) file containing the locations and strengths of long range contact points, and 3D-GNOME simulates the structure and provides a convenient user interface for further analysis. Alternatively, a user may generate structures using published ChIA-PET data for the GM12878 cell line by simply specifying a genomic region of interest. 3D-GNOME is freely available at http://3dgnome.cent.uw.edu.pl/.

  6. 3D-GNOME: an integrated web service for structural modeling of the 3D genome

    PubMed Central

    Szalaj, Przemyslaw; Michalski, Paul J.; Wróblewski, Przemysław; Tang, Zhonghui; Kadlof, Michal; Mazzocco, Giovanni; Ruan, Yijun; Plewczynski, Dariusz

    2016-01-01

    Recent advances in high-throughput chromosome conformation capture (3C) technology, such as Hi-C and ChIA-PET, have demonstrated the importance of 3D genome organization in development, cell differentiation and transcriptional regulation. There is now a widespread need for computational tools to generate and analyze 3D structural models from 3C data. Here we introduce our 3D GeNOme Modeling Engine (3D-GNOME), a web service which generates 3D structures from 3C data and provides tools to visually inspect and annotate the resulting structures, in addition to a variety of statistical plots and heatmaps which characterize the selected genomic region. Users submit a bedpe (paired-end BED format) file containing the locations and strengths of long range contact points, and 3D-GNOME simulates the structure and provides a convenient user interface for further analysis. Alternatively, a user may generate structures using published ChIA-PET data for the GM12878 cell line by simply specifying a genomic region of interest. 3D-GNOME is freely available at http://3dgnome.cent.uw.edu.pl/. PMID:27185892

  7. Development of 3D-QSAR Model for Acetylcholinesterase Inhibitors Using a Combination of Fingerprint, Molecular Docking, and Structure-Based Pharmacophore Approaches.

    PubMed

    Lee, Sehan; Barron, Mace G

    2015-11-01

    Acetylcholinesterase (AChE), a serine hydrolase vital for regulating the neurotransmitter acetylcholine in animals, has been used as a target for drugs and pesticides. With the increasing availability of AChE crystal structures, with or without ligands bound, structure-based approaches have been successfully applied to AChE inhibitors (AChEIs). The major limitation of these approaches has been the small applicability domain due to the lack of structural diversity in the training set. In this study, we developed a 3 dimensional quantitative structure-activity relationship (3D-QSAR) for inhibitory activity of 89 reversible and irreversible AChEIs including drugs and insecticides. A 3D-fingerprint descriptor encoding protein-ligand interactions was developed using molecular docking and structure-based pharmacophore to rationalize the structural requirements responsible for the activity of these compounds. The obtained 3D-QSAR model exhibited high correlation value (R(2) = 0.93) and low mean absolute error (MAE = 0.32 log units) for the training set (n = 63). The model was predictive across a range of structures as shown by the leave-one-out cross-validated correlation coefficient (Q(2) = 0.89) and external validation results (n = 26, R(2) = 0.89, and MAE = 0.38 log units). The model revealed that the compounds with high inhibition potency had proper conformation in the active site gorge and interacted with key amino acid residues, in particular Trp84 and Phe330 at the catalytic anionic site, Trp279 at the peripheral anionic site, and Gly118, Gly119, and Ala201 at the oxyanion hole. The resulting universal 3D-QSAR model provides insight into the multiple molecular interactions determining AChEI potency that may guide future chemical design and regulation of toxic AChEIs.

  8. Development of 3D-QSAR Model for Acetylcholinesterase Inhibitors Using a Combination of Fingerprint, Molecular Docking, and Structure-Based Pharmacophore Approaches.

    PubMed

    Lee, Sehan; Barron, Mace G

    2015-11-01

    Acetylcholinesterase (AChE), a serine hydrolase vital for regulating the neurotransmitter acetylcholine in animals, has been used as a target for drugs and pesticides. With the increasing availability of AChE crystal structures, with or without ligands bound, structure-based approaches have been successfully applied to AChE inhibitors (AChEIs). The major limitation of these approaches has been the small applicability domain due to the lack of structural diversity in the training set. In this study, we developed a 3 dimensional quantitative structure-activity relationship (3D-QSAR) for inhibitory activity of 89 reversible and irreversible AChEIs including drugs and insecticides. A 3D-fingerprint descriptor encoding protein-ligand interactions was developed using molecular docking and structure-based pharmacophore to rationalize the structural requirements responsible for the activity of these compounds. The obtained 3D-QSAR model exhibited high correlation value (R(2) = 0.93) and low mean absolute error (MAE = 0.32 log units) for the training set (n = 63). The model was predictive across a range of structures as shown by the leave-one-out cross-validated correlation coefficient (Q(2) = 0.89) and external validation results (n = 26, R(2) = 0.89, and MAE = 0.38 log units). The model revealed that the compounds with high inhibition potency had proper conformation in the active site gorge and interacted with key amino acid residues, in particular Trp84 and Phe330 at the catalytic anionic site, Trp279 at the peripheral anionic site, and Gly118, Gly119, and Ala201 at the oxyanion hole. The resulting universal 3D-QSAR model provides insight into the multiple molecular interactions determining AChEI potency that may guide future chemical design and regulation of toxic AChEIs. PMID:26202430

  9. STAR3D: a stack-based RNA 3D structural alignment tool

    PubMed Central

    Ge, Ping; Zhang, Shaojie

    2015-01-01

    The various roles of versatile non-coding RNAs typically require the attainment of complex high-order structures. Therefore, comparing the 3D structures of RNA molecules can yield in-depth understanding of their functional conservation and evolutionary history. Recently, many powerful tools have been developed to align RNA 3D structures. Although some methods rely on both backbone conformations and base pairing interactions, none of them consider the entire hierarchical formation of the RNA secondary structure. One of the major issues is that directly applying the algorithms of matching 2D structures to the 3D coordinates is particularly time-consuming. In this article, we propose a novel RNA 3D structural alignment tool, STAR3D, to take into full account the 2D relations between stacks without the complicated comparison of secondary structures. First, the 3D conserved stacks in the inputs are identified and then combined into a tree-like consensus. Afterward, the loop regions are compared one-to-one in accordance with their relative positions in the consensus tree. The experimental results show that the prediction of STAR3D is more accurate for both non-homologous and homologous RNAs than other state-of-the-art tools with shorter running time. PMID:26184875

  10. 3D Geological Model for "LUSI" - a Deep Geothermal System

    NASA Astrophysics Data System (ADS)

    Sohrabi, Reza; Jansen, Gunnar; Mazzini, Adriano; Galvan, Boris; Miller, Stephen A.

    2016-04-01

    Geothermal applications require the correct simulation of flow and heat transport processes in porous media, and many of these media, like deep volcanic hydrothermal systems, host a certain degree of fracturing. This work aims to understand the heat and fluid transport within a new-born sedimentary hosted geothermal system, termed Lusi, that began erupting in 2006 in East Java, Indonesia. Our goal is to develop conceptual and numerical models capable of simulating multiphase flow within large-scale fractured reservoirs such as the Lusi region, with fractures of arbitrary size, orientation and shape. Additionally, these models can also address a number of other applications, including Enhanced Geothermal Systems (EGS), CO2 sequestration (Carbon Capture and Storage CCS), and nuclear waste isolation. Fractured systems are ubiquitous, with a wide-range of lengths and scales, making difficult the development of a general model that can easily handle this complexity. We are developing a flexible continuum approach with an efficient, accurate numerical simulator based on an appropriate 3D geological model representing the structure of the deep geothermal reservoir. Using previous studies, borehole information and seismic data obtained in the framework of the Lusi Lab project (ERC grant n°308126), we present here the first 3D geological model of Lusi. This model is calculated using implicit 3D potential field or multi-potential fields, depending on the geological context and complexity. This method is based on geological pile containing the geological history of the area and relationship between geological bodies allowing automatic computation of intersections and volume reconstruction. Based on the 3D geological model, we developed a new mesh algorithm to create hexahedral octree meshes to transfer the structural geological information for 3D numerical simulations to quantify Thermal-Hydraulic-Mechanical-Chemical (THMC) physical processes.

  11. Constructing a starting 3D shear velocity model with sharp interfaces for SEM-based upper mantle tomography in North America

    NASA Astrophysics Data System (ADS)

    Calo, M.; Bodin, T.; Yuan, H.; Romanowicz, B. A.; Larmat, C. S.; Maceira, M.

    2013-12-01

    Seismic tomography is currently evolving towards 3D earth models that satisfy full seismic waveforms at increasingly high frequencies. This evolution is possible thanks to the advent of powerful numerical methods such as the Spectral Element Method (SEM) that allow accurate computation of the seismic wavefield in complex media, and the drastic increase of computational resources. However, the production of such models requires handling complex misfit functions with more than one local minimum. Standard linearized inversion methods (such as gradient methods) have two main drawbacks: 1) they produce solution models highly dependent on the starting model; 2) they do not provide a means of estimating true model uncertainties. However, these issues can be addressed with stochastic methods that can sample the space of possible solutions efficiently. Such methods are prohibitively challenging computationally in 3D, but increasingly accessible in 1D. In previous work (Yuan and Romanowicz, 2010; Yuan et al., 2011) we developed a continental scale anisotropic upper mantle model of north America based on a combination of long period seismic waveforms and SKS splitting measurements, showing the pervasive presence of layering of anisotropy in the cratonic lithosphere with significant variations in depth of the mid-lithospheric boundary. The radial anisotropy part of the model has been recently updated using the spectral element method for forward wavefield computations and waveform data from the latest deployments of USarray (Yuan and Romanowicz, 2013). However, the long period waveforms (periods > 40s) themselves only provide a relatively smooth view of the mantle if the starting model is smooth, and the mantle discontinuities necessary for geodynamical interpretation are not imaged. Increasing the frequency of the computations to constrain smaller scale features is possible, but challenging computationally, and at the risk of falling in local minima of the misfit function. In

  12. 3D modeling of light interception in heterogeneous forest canopies using ground-based LiDAR data

    NASA Astrophysics Data System (ADS)

    Van der Zande, Dimitry; Stuckens, Jan; Verstraeten, Willem W.; Mereu, Simone; Muys, Bart; Coppin, Pol

    2011-10-01

    A methodology is presented that describes the direct interaction of a forest canopy with incoming radiation using terrestrial LiDAR based vegetation structure in a radiative transfer model. The proposed 'Voxel-based Light Interception Model' (VLIM) is designed to estimate the Percentage of Above Canopy Light (PACL) at any given point of the forest scene. First a voxel-based representation of trees is derived from terrestrial LiDAR data as structural input to model and analyze the light interception of canopies at near leaf level scale. Nine virtual forest stands of three species (beech, poplar, plantain) were generated by means of stochastic L-systems as tree descriptors. Using ray tracer technology hemispherical LiDAR measurements were simulated inside these virtual forests. The leaf area density (LAD) estimates derived from the LiDAR datasets resulted in a mean absolute error of 32.57% without correction and 16.31% when leaf/beam interactions were taken into account. Next, comparison of PACL estimates, computed with VLIM with fully rendered light distributions throughout the canopy based on the L-systems, yielded a mean absolute error of 5.78%. This work shows the potential of the VLIM to model both instantaneous light interception by a canopy as well as average light distributions for entire seasons.

  13. Enhanced LOD Concepts for Virtual 3d City Models

    NASA Astrophysics Data System (ADS)

    Benner, J.; Geiger, A.; Gröger, G.; Häfele, K.-H.; Löwner, M.-O.

    2013-09-01

    Virtual 3D city models contain digital three dimensional representations of city objects like buildings, streets or technical infrastructure. Because size and complexity of these models continuously grow, a Level of Detail (LoD) concept effectively supporting the partitioning of a complete model into alternative models of different complexity and providing metadata, addressing informational content, complexity and quality of each alternative model is indispensable. After a short overview on various LoD concepts, this paper discusses the existing LoD concept of the CityGML standard for 3D city models and identifies a number of deficits. Based on this analysis, an alternative concept is developed and illustrated with several examples. It differentiates between first, a Geometric Level of Detail (GLoD) and a Semantic Level of Detail (SLoD), and second between the interior building and its exterior shell. Finally, a possible implementation of the new concept is demonstrated by means of an UML model.

  14. Bioengineered 3D brain tumor model to elucidate the effects of matrix stiffness on glioblastoma cell behavior using PEG-based hydrogels.

    PubMed

    Wang, Christine; Tong, Xinming; Yang, Fan

    2014-07-01

    Glioblastoma (GBM) is the most common and aggressive form of primary brain tumor with a median survival of 12-15 months, and the mechanisms underlying GBM tumor progression remain largely elusive. Given the importance of tumor niche signaling in driving GBM progression, there is a strong need to develop in vitro models to facilitate analysis of brain tumor cell-niche interactions in a physiologically relevant and controllable manner. Here we report the development of a bioengineered 3D brain tumor model to help elucidate the effects of matrix stiffness on GBM cell fate using poly(ethylene-glycol) (PEG)-based hydrogels with brain-mimicking biochemical and mechanical properties. We have chosen PEG given its bioinert nature and tunable physical property, and the resulting hydrogels allow tunable matrix stiffness without changing the biochemical contents. To facilitate cell proliferation and migration, CRGDS and a MMP-cleavable peptide were chemically incorporated. Hyaluronic acid (HA) was also incorporated to mimic the concentration in the brain extracellular matrix. Using U87 cells as a model GBM cell line, we demonstrate that such biomimetic hydrogels support U87 cell growth, spreading, and migration in 3D over the course of 3 weeks in culture. Gene expression analyses showed U87 cells actively deposited extracellular matrix and continued to upregulate matrix remodeling genes. To examine the effects of matrix stiffness on GBM cell fate in 3D, we encapsulated U87 cells in soft (1 kPa) or stiff (26 kPa) hydrogels, which respectively mimics the matrix stiffness of normal brain or GBM tumor tissues. Our results suggest that changes in matrix stiffness induce differential GBM cell proliferation, morphology, and migration modes in 3D. Increasing matrix stiffness led to delayed U87 cell proliferation inside hydrogels, but cells formed denser spheroids with extended cell protrusions. Cells cultured in stiff hydrogels also showed upregulation of HA synthase 1 and matrix

  15. Coarse-grained modeling of RNA 3D structure.

    PubMed

    Dawson, Wayne K; Maciejczyk, Maciej; Jankowska, Elzbieta J; Bujnicki, Janusz M

    2016-07-01

    Functional RNA molecules depend on three-dimensional (3D) structures to carry out their tasks within the cell. Understanding how these molecules interact to carry out their biological roles requires a detailed knowledge of RNA 3D structure and dynamics as well as thermodynamics, which strongly governs the folding of RNA and RNA-RNA interactions as well as a host of other interactions within the cellular environment. Experimental determination of these properties is difficult, and various computational methods have been developed to model the folding of RNA 3D structures and their interactions with other molecules. However, computational methods also have their limitations, especially when the biological effects demand computation of the dynamics beyond a few hundred nanoseconds. For the researcher confronted with such challenges, a more amenable approach is to resort to coarse-grained modeling to reduce the number of data points and computational demand to a more tractable size, while sacrificing as little critical information as possible. This review presents an introduction to the topic of coarse-grained modeling of RNA 3D structures and dynamics, covering both high- and low-resolution strategies. We discuss how physics-based approaches compare with knowledge based methods that rely on databases of information. In the course of this review, we discuss important aspects in the reasoning process behind building different models and the goals and pitfalls that can result.

  16. Novel scalable 3D cell based model for in vitro neurotoxicity testing: Combining human differentiated neurospheres with gene expression and functional endpoints.

    PubMed

    Terrasso, Ana Paula; Pinto, Catarina; Serra, Margarida; Filipe, Augusto; Almeida, Susana; Ferreira, Ana Lúcia; Pedroso, Pedro; Brito, Catarina; Alves, Paula Marques

    2015-07-10

    There is an urgent need for new in vitro strategies to identify neurotoxic agents with speed, reliability and respect for animal welfare. Cell models should include distinct brain cell types and represent brain microenvironment to attain higher relevance. The main goal of this study was to develop and validate a human 3D neural model containing both neurons and glial cells, applicable for toxicity testing in high-throughput platforms. To achieve this, a scalable bioprocess for neural differentiation of human NTera2/cl.D1 cells in stirred culture systems was developed. Endpoints based on neuronal- and astrocytic-specific gene expression and functionality in 3D were implemented in multi-well format and used for toxicity assessment. The prototypical neurotoxicant acrylamide affected primarily neurons, impairing synaptic function; our results suggest that gene expression of the presynaptic marker synaptophysin can be used as sensitive endpoint. Chloramphenicol, described as neurotoxicant affected both cell types, with cytoskeleton markers' expression significantly reduced, particularly in astrocytes. In conclusion, a scalable and reproducible process for production of differentiated neurospheres enriched in mature neurons and functional astrocytes was obtained. This 3D approach allowed efficient production of large numbers of human differentiated neurospheres, which in combination with gene expression and functional endpoints are a powerful cell model to evaluate human neuronal and astrocytic toxicity.

  17. Hough transform-based 3D mesh retrieval

    NASA Astrophysics Data System (ADS)

    Zaharia, Titus; Preteux, Francoise J.

    2001-11-01

    This papre addresses the issue of 3D mesh indexation by using shape descriptors (SDs) under constraints of geometric and topological invariance. A new shape descriptor, the Optimized 3D Hough Transform Descriptor (O3HTD) is here proposed. Intrinsically topologically stable, the O3DHTD is not invariant to geometric transformations. Nevertheless, we show mathematically how the O3DHTD can be optimally associated (in terms of compactness of representation and computational complexity) with a spatial alignment procedure which leads to a geometric invariant behavior. Experimental results have been carried out upon the MPEG-7 3D model database consisting of about 1300 meshes in VRML 2.0 format. Objective retrieval results, based upon the definition of a categorized ground truth subset, are reported in terms of Bull Eye Percentage (BEP) score and compared to those obtained by applying the MPEg-7 3D SD. It is shown that the O3DHTD outperforms the MPEg-7 3D SD of up to 28%.

  18. Use Models like Maps in a 3D SDI

    NASA Astrophysics Data System (ADS)

    Gietzel, Jan; Gabriel, Paul; Schaeben, Helmut; Le, Hai Ha

    2013-04-01

    Digital geological applications have become 3D up to 4D modelling of the underground. The modellers are working very heterogeneously in terms of its applied software systems. On the other hand the 3D/4D modelling of the subsurface has become part of the geological surveys all around the world. This implies a wide spread group of users working in different institutions aiming to work together on one subsurface model. Established 3D/4D-modelling software systems mainly use a file based approach to store data, which is in a high contrast to the needs of a central administrated and network based data transfer approach. At the department of geophysics and geo information sciences at the Technical University Bergakademie Freiberg, the GST system for managing 3D and 4D geosciences data in a databases system was developed and is now continued by the company GiGa infosystems. The GST-Framework includes a storage engine, a web service for sharing and a number of client software including a browser based client interface for visualising, accessing and manipulating geological CAD data. Including a check out system GST supports multi user editing on huge models, designed to manage seamless high resolution models of the subsurface. While working on complex projects various software is used for the creation of the model, the prediction of properties and final simulation. A problem rising from the use of several software is the interoperability of the models. Due to conversion errors different working groups use mainly different raw data. This results in different models, which have to be corrected with additional effort. One platform sharing the models is strongly demanded. One high potential solution is a centralized and software independent storage, which will be presented.

  19. 3D Modeling Techniques for Print and Digital Media

    NASA Astrophysics Data System (ADS)

    Stephens, Megan Ashley

    In developing my thesis, I looked to gain skills using ZBrush to create 3D models, 3D scanning, and 3D printing. The models created compared the hearts of several vertebrates and were intended for students attending Comparative Vertebrate Anatomy. I used several resources to create a model of the human heart and was able to work from life while creating heart models from other vertebrates. I successfully learned ZBrush and 3D scanning, and successfully printed 3D heart models. ZBrush allowed me to create several intricate models for use in both animation and print media. The 3D scanning technique did not fit my needs for the project, but may be of use for later projects. I was able to 3D print using two different techniques as well.

  20. SummitView 1.0: a code to automatically generate 3D solid models of surface micro-machining based MEMS designs.

    SciTech Connect

    McBride, Cory L. (Elemental Technologies, American Fort, UT); Yarberry, Victor R.; Schmidt, Rodney Cannon; Meyers, Ray J.

    2006-11-01

    This report describes the SummitView 1.0 computer code developed at Sandia National Laboratories. SummitView is designed to generate a 3D solid model, amenable to visualization and meshing, that represents the end state of a microsystem fabrication process such as the SUMMiT (Sandia Ultra-Planar Multilevel MEMS Technology) V process. Functionally, SummitView performs essentially the same computational task as an earlier code called the 3D Geometry modeler [1]. However, because SummitView is based on 2D instead of 3D data structures and operations, it has significant speed and robustness advantages. As input it requires a definition of both the process itself and the collection of individual 2D masks created by the designer and associated with each of the process steps. The definition of the process is contained in a special process definition file [2] and the 2D masks are contained in MEM format files [3]. The code is written in C++ and consists of a set of classes and routines. The classes represent the geometric data and the SUMMiT V process steps. Classes are provided for the following process steps: Planar Deposition, Planar Etch, Conformal Deposition, Dry Etch, Wet Etch and Release Etch. SummitView is built upon the 2D Boolean library GBL-2D [4], and thus contains all of that library's functionality.

  1. Phenotypic transition maps of 3D breast acini obtained by imaging-guided agent-based modeling

    SciTech Connect

    Tang, Jonathan; Enderling, Heiko; Becker-Weimann, Sabine; Pham, Christopher; Polyzos, Aris; Chen, Chen-Yi; Costes, Sylvain V

    2011-02-18

    We introduce an agent-based model of epithelial cell morphogenesis to explore the complex interplay between apoptosis, proliferation, and polarization. By varying the activity levels of these mechanisms we derived phenotypic transition maps of normal and aberrant morphogenesis. These maps identify homeostatic ranges and morphologic stability conditions. The agent-based model was parameterized and validated using novel high-content image analysis of mammary acini morphogenesis in vitro with focus on time-dependent cell densities, proliferation and death rates, as well as acini morphologies. Model simulations reveal apoptosis being necessary and sufficient for initiating lumen formation, but cell polarization being the pivotal mechanism for maintaining physiological epithelium morphology and acini sphericity. Furthermore, simulations highlight that acinus growth arrest in normal acini can be achieved by controlling the fraction of proliferating cells. Interestingly, our simulations reveal a synergism between polarization and apoptosis in enhancing growth arrest. After validating the model with experimental data from a normal human breast line (MCF10A), the system was challenged to predict the growth of MCF10A where AKT-1 was overexpressed, leading to reduced apoptosis. As previously reported, this led to non growth-arrested acini, with very large sizes and partially filled lumen. However, surprisingly, image analysis revealed a much lower nuclear density than observed for normal acini. The growth kinetics indicates that these acini grew faster than the cells comprising it. The in silico model could not replicate this behavior, contradicting the classic paradigm that ductal carcinoma in situ is only the result of high proliferation and low apoptosis. Our simulations suggest that overexpression of AKT-1 must also perturb cell-cell and cell-ECM communication, reminding us that extracellular context can dictate cellular behavior.

  2. An efficient and robust 3D mesh compression based on 3D watermarking and wavelet transform

    NASA Astrophysics Data System (ADS)

    Zagrouba, Ezzeddine; Ben Jabra, Saoussen; Didi, Yosra

    2011-06-01

    The compression and watermarking of 3D meshes are very important in many areas of activity including digital cinematography, virtual reality as well as CAD design. However, most studies on 3D watermarking and 3D compression are done independently. To verify a good trade-off between protection and a fast transfer of 3D meshes, this paper proposes a new approach which combines 3D mesh compression with mesh watermarking. This combination is based on a wavelet transformation. In fact, the used compression method is decomposed to two stages: geometric encoding and topologic encoding. The proposed approach consists to insert a signature between these two stages. First, the wavelet transformation is applied to the original mesh to obtain two components: wavelets coefficients and a coarse mesh. Then, the geometric encoding is done on these two components. The obtained coarse mesh will be marked using a robust mesh watermarking scheme. This insertion into coarse mesh allows obtaining high robustness to several attacks. Finally, the topologic encoding is applied to the marked coarse mesh to obtain the compressed mesh. The combination of compression and watermarking permits to detect the presence of signature after a compression of the marked mesh. In plus, it allows transferring protected 3D meshes with the minimum size. The experiments and evaluations show that the proposed approach presents efficient results in terms of compression gain, invisibility and robustness of the signature against of many attacks.

  3. Tracking people and cars using 3D modeling and CCTV.

    PubMed

    Edelman, Gerda; Bijhold, Jurrien

    2010-10-10

    The aim of this study was to find a method for the reconstruction of movements of people and cars using CCTV footage and a 3D model of the environment. A procedure is proposed, in which video streams are synchronized and displayed in a 3D model, by using virtual cameras. People and cars are represented by cylinders and boxes, which are moved in the 3D model, according to their movements as shown in the video streams. The procedure was developed and tested in an experimental setup with test persons who logged their GPS coordinates as a recording of the ground truth. Results showed that it is possible to implement this procedure and to reconstruct movements of people and cars from video recordings. The procedure was also applied to a forensic case. In this work we experienced that more situational awareness was created by the 3D model, which made it easier to track people on multiple video streams. Based on all experiences from the experimental set up and the case, recommendations are formulated for use in practice.

  4. Combining terrestrial stereophotogrammetry, DGPS and GIS-based 3D voxel modelling in the volumetric recording of archaeological features

    NASA Astrophysics Data System (ADS)

    Orengo, Hector A.

    2013-02-01

    Archaeological recording of structures and excavations in high mountain areas is greatly hindered by the scarce availability of both space, to transport material, and time. The Madriu-Perafita-Claror, InterAmbAr and PCR Mont Lozère high mountain projects have documented hundreds of archaeological structures and carried out many archaeological excavations. These projects required the development of a technique which could record both structures and the process of an archaeological excavation in a fast and reliable manner. The combination of DGPS, close-range terrestrial stereophotogrammetry and voxel based GIS modelling offered a perfect solution since it helped in developing a strategy which would obtain all the required data on-site fast and with a high degree of precision. These data are treated off-site to obtain georeferenced orthoimages covering both the structures and the excavation process from which site and excavation plans can be created. The proposed workflow outputs also include digital surface models and volumetric models of the excavated areas from which topography and archaeological profiles were obtained by voxel-based GIS procedures. In this way, all the graphic recording required by standard archaeological practices was met.

  5. Object-oriented urban 3D spatial data model organization method

    NASA Astrophysics Data System (ADS)

    Li, Jing-wen; Li, Wen-qing; Lv, Nan; Su, Tao

    2015-12-01

    This paper combined the 3d data model with object-oriented organization method, put forward the model of 3d data based on object-oriented method, implemented the city 3d model to quickly build logical semantic expression and model, solved the city 3d spatial information representation problem of the same location with multiple property and the same property with multiple locations, designed the space object structure of point, line, polygon, body for city of 3d spatial database, and provided a new thought and method for the city 3d GIS model and organization management.

  6. A New FE Modeling Method for Isothermal Local Loading Process of Large-scale Complex Titanium Alloy Components Based on DEFORM-3D

    SciTech Connect

    Zhang Dawei; Yang He; Sun Zhichao; Fan Xiaoguang

    2010-06-15

    Isothermal local loading process provides a new way to form large-scale complex titanium alloy components. The forming process is characterized by an extreme size (large scale in global and compared small size in regional), multi-parameter effects, and complicated loading path. To establish a reasonable finite element model is one of the key problems urgently to be solved in the research and development of isothermal local loading forming process of large-scale complex titanium alloy components. In this paper, a new finite element model of the isothermal local loading process is developed under the DEFORM-3D environment based on the solution of some key techniques. The modeling method has the following features: (1) different meshing techniques are used in different loading areas and the number of meshed elements is determined according to the deformation characteristic in different local loading steps in order to improve computational efficiency; (2) the accurate magnitude of the friction factor under titanium alloy hot forming (isothermal forming) condition is adopted instead of the typical value for lubricated hot forming processes; (3) different FEM solvers are chosen at different stages according to the loading characteristic and the contact state; (4) in contrast to the local component model, a full 3D component is modeled to simulate the process. The 3D-FE model is validated by experimental data of a large-scale bulkhead forming under isothermal local loading. The model can describe the quantitative relationships between the forming conditions and the forming results. The results of the present study may provide a basis for studying the local deformation mechanism, selecting the reasonable parameters, optimizing the die design and the process control in isothermal local loading process of large-scale complex titanium alloy components.

  7. A New FE Modeling Method for Isothermal Local Loading Process of Large-scale Complex Titanium Alloy Components Based on DEFORM-3D

    NASA Astrophysics Data System (ADS)

    Zhang, Dawei; Yang, He; Sun, Zhichao; Fan, Xiaoguang

    2010-06-01

    Isothermal local loading process provides a new way to form large-scale complex titanium alloy components. The forming process is characterized by an extreme size (large scale in global and compared small size in regional), multi-parameter effects, and complicated loading path. To establish a reasonable finite element model is one of the key problems urgently to be solved in the research and development of isothermal local loading forming process of large-scale complex titanium alloy components. In this paper, a new finite element model of the isothermal local loading process is developed under the DEFORM-3D environment based on the solution of some key techniques. The modeling method has the following features: (1) different meshing techniques are used in different loading areas and the number of meshed elements is determined according to the deformation characteristic in different local loading steps in order to improve computational efficiency; (2) the accurate magnitude of the friction factor under titanium alloy hot forming (isothermal forming) condition is adopted instead of the typical value for lubricated hot forming processes; (3) different FEM solvers are chosen at different stages according to the loading characteristic and the contact state; (4) in contrast to the local component model, a full 3D component is modeled to simulate the process. The 3D-FE model is validated by experimental data of a large-scale bulkhead forming under isothermal local loading. The model can describe the quantitative relationships between the forming conditions and the forming results. The results of the present study may provide a basis for studying the local deformation mechanism, selecting the reasonable parameters, optimizing the die design and the process control in isothermal local loading process of large-scale complex titanium alloy components.

  8. Computational chemistry study of 3D-structure-function relationships for enzymes based on Markov models for protein electrostatic, HINT, and van der Waals potentials.

    PubMed

    Concu, Riccardo; Podda, Gianni; Uriarte, Eugenio; González-Díaz, Humberto

    2009-07-15

    In a significant work, Dobson and Doig (J Mol Biol 2003, 330, 771) illustrated protein prediction as enzymatic or not from spatial structure without resorting to alignments. They used 52 protein features and a nonlinear support vector machine model to classify more than 1000 proteins collected from the PDB with a 77% overall accuracy. The most useful features were: the secondary-structure content, the amino acid frequencies, the number of disulphide bonds, and the largest cleft size. Working on the same dataset used by D&D, in this article we reported a good and simple model, based on the Markov chain models (MCM), to classify protein 3D structures as enzymatic or not, taking into consideration the spatial structure without resorting to alignments. Here we define, for the first time, a general MCM to calculate the electrostatic potential, molecular vibrations, van der Waals (vdw) interactions, and hydrophobic interactions (HINT) and use them in comparative studies of potential fields and/or protein function prediction. The dataset is composed of 1371 proteins divided into 689 enzymes and 682 nonenzymes, all proteins were collected from the PDB. The best model we found was a linear model carried out with the linear discriminant analysis; it was able to classify 74.18% of the proteins using only two electrostatic potentials. In the work described here, we define 3D-HINT potentials (mu(k)) and use them for the first time to derive a classifier for protein enzymes. We analyzed ROC curves, domain of applicability, parametric assumptions, desirability maps, and also tested other nonlinear artificial neural network models which did not improve the linear model. In closing, this MCM allows a fast calculation and comparison of different potentials deriving into accurate protein 3D structure-function relationships, notably simpler than the previous.

  9. RNA 3D Structure Modeling by Combination of Template-Based Method ModeRNA, Template-Free Folding with SimRNA, and Refinement with QRNAS.

    PubMed

    Piatkowski, Pawel; Kasprzak, Joanna M; Kumar, Deepak; Magnus, Marcin; Chojnowski, Grzegorz; Bujnicki, Janusz M

    2016-01-01

    RNA encompasses an essential part of all known forms of life. The functions of many RNA molecules are dependent on their ability to form complex three-dimensional (3D) structures. However, experimental determination of RNA 3D structures is laborious and challenging, and therefore, the majority of known RNAs remain structurally uncharacterized. To address this problem, computational structure prediction methods were developed that either utilize information derived from known structures of other RNA molecules (by way of template-based modeling) or attempt to simulate the physical process of RNA structure formation (by way of template-free modeling). All computational methods suffer from various limitations that make theoretical models less reliable than high-resolution experimentally determined structures. This chapter provides a protocol for computational modeling of RNA 3D structure that overcomes major limitations by combining two complementary approaches: template-based modeling that is capable of predicting global architectures based on similarity to other molecules but often fails to predict local unique features, and template-free modeling that can predict the local folding, but is limited to modeling the structure of relatively small molecules. Here, we combine the use of a template-based method ModeRNA with a template-free method SimRNA. ModeRNA requires a sequence alignment of the target RNA sequence to be modeled with a template of the known structure; it generates a model that predicts the structure of a conserved core and provides a starting point for modeling of variable regions. SimRNA can be used to fold small RNAs (<80 nt) without any additional structural information, and to refold parts of models for larger RNAs that have a correctly modeled core. ModeRNA can be either downloaded, compiled and run locally or run through a web interface at http://genesilico.pl/modernaserver/ . SimRNA is currently available to download for local use as a precompiled

  10. RNA 3D Structure Modeling by Combination of Template-Based Method ModeRNA, Template-Free Folding with SimRNA, and Refinement with QRNAS.

    PubMed

    Piatkowski, Pawel; Kasprzak, Joanna M; Kumar, Deepak; Magnus, Marcin; Chojnowski, Grzegorz; Bujnicki, Janusz M

    2016-01-01

    RNA encompasses an essential part of all known forms of life. The functions of many RNA molecules are dependent on their ability to form complex three-dimensional (3D) structures. However, experimental determination of RNA 3D structures is laborious and challenging, and therefore, the majority of known RNAs remain structurally uncharacterized. To address this problem, computational structure prediction methods were developed that either utilize information derived from known structures of other RNA molecules (by way of template-based modeling) or attempt to simulate the physical process of RNA structure formation (by way of template-free modeling). All computational methods suffer from various limitations that make theoretical models less reliable than high-resolution experimentally determined structures. This chapter provides a protocol for computational modeling of RNA 3D structure that overcomes major limitations by combining two complementary approaches: template-based modeling that is capable of predicting global architectures based on similarity to other molecules but often fails to predict local unique features, and template-free modeling that can predict the local folding, but is limited to modeling the structure of relatively small molecules. Here, we combine the use of a template-based method ModeRNA with a template-free method SimRNA. ModeRNA requires a sequence alignment of the target RNA sequence to be modeled with a template of the known structure; it generates a model that predicts the structure of a conserved core and provides a starting point for modeling of variable regions. SimRNA can be used to fold small RNAs (<80 nt) without any additional structural information, and to refold parts of models for larger RNAs that have a correctly modeled core. ModeRNA can be either downloaded, compiled and run locally or run through a web interface at http://genesilico.pl/modernaserver/ . SimRNA is currently available to download for local use as a precompiled

  11. The 3D rocket combustor acoustics model

    NASA Technical Reports Server (NTRS)

    Priem, Richard J.; Breisacher, Kevin J.

    1992-01-01

    The theory and procedures for determining the characteristics of pressure oscillations in rocket engines with prescribed burning rate oscillations are presented. Analyses including radial and hub baffles and absorbers can be performed in one, two, and three dimensions. Pressure and velocity oscillations calculated using this procedure are presented for the SSME to show the influence of baffles and absorbers on the burning rate oscillations required to achieve neutral stability. Comparisons are made between the results obtained utilizing 1-D, 2-D, and 3-D assumptions with regards to capturing the physical phenomena of interest and computational requirements.

  12. Robust 3D reconstruction system for human jaw modeling

    NASA Astrophysics Data System (ADS)

    Yamany, Sameh M.; Farag, Aly A.; Tazman, David; Farman, Allan G.

    1999-03-01

    This paper presents a model-based vision system for dentistry that will replace traditional approaches used in diagnosis, treatment planning and surgical simulation. Dentistry requires accurate 3D representation of the teeth and jaws for many diagnostic and treatment purposes. For example orthodontic treatment involves the application of force systems to teeth over time to correct malocclusion. In order to evaluate tooth movement progress, the orthodontists monitors this movement by means of visual inspection, intraoral measurements, fabrication of plastic models, photographs and radiographs, a process which is both costly and time consuming. In this paper an integrate system has been developed to record the patient's occlusion using computer vision. Data is acquired with an intraoral video camera. A modified shape from shading (SFS) technique, using perspective projection and camera calibration, is used to extract accurate 3D information from a sequence of 2D images of the jaw. A new technique for 3D data registration, using a Grid Closest Point transform and genetic algorithms, is used to register the SFS output. Triangulization is then performed, and a solid 3D model is obtained via a rapid prototype machine.

  13. Reconstruction and 3D visualisation based on objective real 3D based documentation.

    PubMed

    Bolliger, Michael J; Buck, Ursula; Thali, Michael J; Bolliger, Stephan A

    2012-09-01

    Reconstructions based directly upon forensic evidence alone are called primary information. Historically this consists of documentation of findings by verbal protocols, photographs and other visual means. Currently modern imaging techniques such as 3D surface scanning and radiological methods (computer tomography, magnetic resonance imaging) are also applied. Secondary interpretation is based on facts and the examiner's experience. Usually such reconstructive expertises are given in written form, and are often enhanced by sketches. However, narrative interpretations can, especially in complex courses of action, be difficult to present and can be misunderstood. In this report we demonstrate the use of graphic reconstruction of secondary interpretation with supporting pictorial evidence, applying digital visualisation (using 'Poser') or scientific animation (using '3D Studio Max', 'Maya') and present methods of clearly distinguishing between factual documentation and examiners' interpretation based on three cases. The first case involved a pedestrian who was initially struck by a car on a motorway and was then run over by a second car. The second case involved a suicidal gunshot to the head with a rifle, in which the trigger was pushed with a rod. The third case dealt with a collision between two motorcycles. Pictorial reconstruction of the secondary interpretation of these cases has several advantages. The images enable an immediate overview, give rise to enhanced clarity, and compel the examiner to look at all details if he or she is to create a complete image. PMID:21979427

  14. 3d model for site effect assessment at Nice (France)

    NASA Astrophysics Data System (ADS)

    Bertrand, E.; Courrioux, G.; Bourgine, B.; Bour, M.; Guillen, A.; Mouroux, P.; Devaux, E.; Duval, A. M.

    2003-04-01

    Assessment of lithologic site effects is based on an accurate knowledge of properties and geometry of superficial geological formations, i.e. ideally a 3D-4G subsurface model (Geology, Geomorphology, Geophysics, Geotechnics). Such a model has been achieved using a 3D geomodeler ("Geological Editor" developed at BRGM) that allows building 3D volumes of geological formations starting from drill-holes data, sections, and geological maps. This software uses a pseudo-stratigraphic pile in order to reproduce geological history and structural relationships (erosion, deposit). The interpolation is achieved through a 3D potential field. A geostatistical formulation allows to consider data points of a geological limit as equipotential, and sructural dips as gradient inputs for the 3D field interpolation. Then isosurfaces corresponding to each limit are combined using formation relationships to provide volumic models of geological formations. The first task was to identify the relevant geological formations underlying in Nice area. In a first approach Mesozoic bedrock, Pliocene bedrock, and Quaternary alluvial deposits have been distinguished considering their seismic properties. Then alluvions have been subdivided into 9 groups according to their lithology and granulometry. Modelling has been performed considering 2 major erosion surfaces, post-Mesozoic and post-Pliocene. The succession of Quaternary alluviums have been considered as "onlap deposits". Given adjacent lithologies contained in maps and drill holes, these relations lead to logical identification of the roof of formations to be interpolated. The distribution of modeled geological formations can be visualised in 3 dimensions or in 2D sections. Besides the visual interest of 3D representations, the model is first used to build a series of earth columns over a 50m/50m 2D grid. A statistical analysis allowed to identify 73 existing configurations in the Nice district area. Among these, only 15 configurations

  15. Modelling of facial growth in Czech children based on longitudinal data: Age progression from 12 to 15 years using 3D surface models.

    PubMed

    Koudelová, Jana; Dupej, Ján; Brůžek, Jaroslav; Sedlak, Petr; Velemínská, Jana

    2015-03-01

    Dealing with the increasing number of long-term missing children and juveniles requires more precise and objective age progression techniques for the prediction of their current appearance. Our contribution includes detailed and real facial growth information used for modelling age progression during adolescence. This study was based on an evaluation of the overall 180 three-dimensional (3D) facial scans of Czech children (23 boys, 22 girls), which were longitudinally studied from 12 to 15 years of age and thus revealed the real growth-related changes. The boys underwent more marked changes compared with the girls, especially in the regions of the eyebrow ridges, nose and chin. Using modern geometric morphometric methods, together with their applications, we modelled the ageing and allometric trajectories for both sexes and simulated the age-progressed effects on facial scans. The facial parts that are important for facial recognition (eyes, nose, mouth and chin) all deviated less than 0.75mm, whereas the areas with the largest deviations were situated on the marginal parts of the face. The mean error between the predicted and real facial morphology obtained by modelling the children from 12 to 15 years of age was 1.92mm in girls and 1.86mm in boys. This study is beneficial for forensic artists as it reduces the subjectivity of age progression methods.

  16. 3D Geological modelling - towards a European level infrastructure

    NASA Astrophysics Data System (ADS)

    Lee, Kathryn A.; van der Krogt, Rob; Busschers, Freek S.

    2013-04-01

    The joint European Geological Surveys are preparing the ground for a "European Geological Data Infrastructure" (EGDI), under the framework of the FP7-project EGDI-Scope. This scoping study, started in June 2012, for a pan-European e-Infrastructure is based on the successes of earlier joint projects including 'OneGeology-Europe' and aims to provide the backbone for serving interoperable, geological data currently held by European Geological Surveys. Also data from past, ongoing and future European projects will be incorporated. The scope will include an investigation of the functional and technical requirements for serving 3D geological models and will look to research the potential for providing a framework to integrate models at different scales, and form a structure for enabling the development of new and innovative model delivery mechanisms. The EGDI-scope project encourages pan-European inter-disciplinary collaboration between all European Geological Surveys. It aims to enhance emerging web based technologies that will facilitate the delivery of geological data to user communities involved in European policy making and international industry, but also to geoscientific research communities and the general public. Therefore, stakeholder input and communication is imperative to the success, as is the collaboration with all the Geological Surveys of Europe. The most important functional and technical requirements for delivery of such information at pan-European level will be derived from exchanges with relevant European stakeholder representatives and providers of geological data. For handling and delivering 3D geological model data the project will need to address a number of strategic issues: • Which are the most important issues and queries for the relevant stakeholders, requiring 3D geological models? How can this be translated to functional requirements for development and design of an integrated European application? • How to handle the very large

  17. Inclusion-based effective medium models for the field-scale permeability of 3D fractured rock masses

    NASA Astrophysics Data System (ADS)

    Ebigbo, Anozie; Lang, Philipp S.; Paluszny, Adriana; Zimmerman, Robert W.

    2016-04-01

    Fractures that are more permeable than their host rock can act as preferential, or at least additional, pathways for fluid to flow through the rock. The additional transmissivity contributed by these fractures will be of great relevance in several areas of earth science and engineering, such as radioactive waste disposal in crystalline rock, exploitation of fractured hydrocarbon and geothermal reservoirs, or hydraulic fracturing. In describing or predicting flow through fractured rock, the effective permeability of the rock mass, comprising both the rock matrix and a network of fractures, is a crucial parameter, and will depend on several geometric properties of the fractures/networks, such as lateral extent, aperture, orientation, and fracture density. This study investigates the ability of classical inclusion-based effective medium models (following the work of Sævik et al., Transp. Porous Media, 2013) to predict this permeability. In these models, the fractures are represented as thin, spheroidal inclusions, the interiors of which are treated as porous media having a high (but finite) permeability. The predictions of various effective medium models, such as the symmetric and asymmetric self-consistent schemes, the differential scheme, and Maxwell's method, are tested against the results of explicit numerical simulations of mono- and polydisperse isotropic fracture networks embedded in a permeable rock matrix. Comparisons are also made with the Hashin-Shrikman bounds, Snow's model, and Mourzenko's heuristic model (Mourzenko et al., Phys. Rev. E, 2011). This problem is characterised mathematically by two small parameters, the aspect ratio of the spheroidal fractures, α, and the ratio between matrix and fracture permeability, κ. Two different regimes can be identified, corresponding to α/κ < 1 and α/κ > 1. The lower the value of α/κ, the more significant is flow through the matrix. Due to differing flow patterns, the dependence of effective permeability on

  18. Molecular modeling, quantum polarized ligand docking and structure-based 3D-QSAR analysis of the imidazole series as dual AT1 and ETA receptor antagonists

    PubMed Central

    Singh, Khuraijam Dhanachandra; Muthusamy, Karthikeyan

    2013-01-01

    Aim: Both endothelin ETA receptor antagonists and angiotensin AT1 receptor antagonists lower blood pressure in hypertensive patients. A dual AT1 and ETA receptor antagonist may be more efficacious antihypertensive drug. In this study we identified the mode and mechanism of binding of imidazole series of compounds as dual AT1 and ETA receptor antagonists. Methods: Molecular modeling approach combining quantum-polarized ligand docking (QPLD), MM/GBSA free-energy calculation and 3D-QSAR analysis was used to evaluate 24 compounds as dual AT1 and ETA receptor antagonists and to reveal their binding modes and structural basis of the inhibitory activity. Pharmacophore-based virtual screening and docking studies were performed to identify more potent dual antagonists. Results: 3D-QSAR models of the imidazole compounds were developed from the conformer generated by QPLD, and the resulting models showed a good correlation between the predicted and experimental activity. The visualization of the 3D-QSAR model in the context of the compounds under study revealed the details of the structure-activity relationship: substitution of methoxymethyl and cyclooctanone might increase the activity against AT1 receptor, while substitution of cyclohexone and trimethylpyrrolidinone was important for the activity against ETA receptor; addition of a trimethylpyrrolidinone to compound 9 significantly reduced its activity against AT1 receptor but significantly increased its activity against ETA receptor, which was likely due to the larger size and higher intensities of the H-bond donor and acceptor regions in the active site of ETA receptor. Pharmacophore-based virtual screening followed by subsequent Glide SP, XP, QPLD and MM/GBSA calculation identified 5 potential lead compounds that might act as dual AT1 and ETA receptor antagonists. Conclusion: This study may provide some insights into the development of novel potent dual ETA and AT1 receptor antagonists. As a result, five compounds are

  19. Nodal-line pairing with 1D-3D coupled Fermi surfaces: A model motivated by Cr-based superconductors

    NASA Astrophysics Data System (ADS)

    Wachtel, Gideon; Kim, Yong Baek

    2016-09-01

    Motivated by the recent discovery of a new family of chromium-based superconductors, we consider a two-band model, where a band of electrons dispersing only in one direction interacts with a band of electrons dispersing in all three directions. Strong 2 kf density fluctuations in the one-dimensional band induces attractive interactions between the three-dimensional electrons, which, in turn, makes the system superconducting. Solving the associated Eliashberg equations, we obtain a gap function which is peaked at the "poles" of the three-dimensional Fermi sphere, and decreases towards the "equator." When strong enough local repulsion is included, the gap actually changes sign around the equator and nodal rings are formed. These nodal rings manifest themselves in several experimentally observable quantities, some of which resemble unconventional observations in the newly discovered superconductors which motivated this work.

  20. Structured Light-Based 3D Reconstruction System for Plants.

    PubMed

    Nguyen, Thuy Tuong; Slaughter, David C; Max, Nelson; Maloof, Julin N; Sinha, Neelima

    2015-07-29

    Camera-based 3D reconstruction of physical objects is one of the most popular computer vision trends in recent years. Many systems have been built to model different real-world subjects, but there is lack of a completely robust system for plants. This paper presents a full 3D reconstruction system that incorporates both hardware structures (including the proposed structured light system to enhance textures on object surfaces) and software algorithms (including the proposed 3D point cloud registration and plant feature measurement). This paper demonstrates the ability to produce 3D models of whole plants created from multiple pairs of stereo images taken at different viewing angles, without the need to destructively cut away any parts of a plant. The ability to accurately predict phenotyping features, such as the number of leaves, plant height, leaf size and internode distances, is also demonstrated. Experimental results show that, for plants having a range of leaf sizes and a distance between leaves appropriate for the hardware design, the algorithms successfully predict phenotyping features in the target crops, with a recall of 0.97 and a precision of 0.89 for leaf detection and less than a 13-mm error for plant size, leaf size and internode distance.

  1. Structured Light-Based 3D Reconstruction System for Plants

    PubMed Central

    Nguyen, Thuy Tuong; Slaughter, David C.; Max, Nelson; Maloof, Julin N.; Sinha, Neelima

    2015-01-01

    Camera-based 3D reconstruction of physical objects is one of the most popular computer vision trends in recent years. Many systems have been built to model different real-world subjects, but there is lack of a completely robust system for plants.This paper presents a full 3D reconstruction system that incorporates both hardware structures (including the proposed structured light system to enhance textures on object surfaces) and software algorithms (including the proposed 3D point cloud registration and plant feature measurement). This paper demonstrates the ability to produce 3D models of whole plants created from multiple pairs of stereo images taken at different viewing angles, without the need to destructively cut away any parts of a plant. The ability to accurately predict phenotyping features, such as the number of leaves, plant height, leaf size and internode distances, is also demonstrated. Experimental results show that, for plants having a range of leaf sizes and a distance between leaves appropriate for the hardware design, the algorithms successfully predict phenotyping features in the target crops, with a recall of 0.97 and a precision of 0.89 for leaf detection and less than a 13-mm error for plant size, leaf size and internode distance. PMID:26230701

  2. Image-based 3D modeling for the knowledge and the representation of archaeological dig and pottery: Sant'Omobono and Sarno project's strategies

    NASA Astrophysics Data System (ADS)

    Gianolio, S.; Mermati, F.; Genovese, G.

    2014-06-01

    This paper presents a "standard" method that is being developed by ARESlab of Rome's La Sapienza University for the documentation and the representation of the archaeological artifacts and structures through automatic photogrammetry software. The image-based 3D modeling technique was applied in two projects: in Sarno and in Rome. The first is a small city in Campania region along Via Popilia, known as the ancient way from Capua to Rhegion. The interest in this city is based on the recovery of over 2100 tombs from local necropolis that contained more than 100.000 artifacts collected in "Museo Nazionale Archeologico della Valle del Sarno". In Rome the project regards the archaeological area of Insula Volusiana placed in Forum Boarium close to Sant'Omobono sacred area. During the studies photographs were taken by Canon EOS 5D Mark II and Canon EOS 600D cameras. 3D model and meshes were created in Photoscan software. The TOF-CW Z+F IMAGER® 5006h laser scanner is used to dense data collection of archaeological area of Rome and to make a metric comparison between range-based and image-based techniques. In these projects the IBM as a low-cost technique proved to be a high accuracy improvement if planned correctly and it shown also how it helps to obtain a relief of complex strata and architectures compared to traditional manual documentation methods (e.g. two-dimensional drawings). The multidimensional recording can be used for future studies of the archaeological heritage, especially for the "destructive" character of an excavation. The presented methodology is suitable for the 3D registration and the accuracy of the methodology improved also the scientific value.

  3. A model-based 3D template matching technique for pose acquisition of an uncooperative space object.

    PubMed

    Opromolla, Roberto; Fasano, Giancarmine; Rufino, Giancarlo; Grassi, Michele

    2015-01-01

    This paper presents a customized three-dimensional template matching technique for autonomous pose determination of uncooperative targets. This topic is relevant to advanced space applications, like active debris removal and on-orbit servicing. The proposed technique is model-based and produces estimates of the target pose without any prior pose information, by processing three-dimensional point clouds provided by a LIDAR. These estimates are then used to initialize a pose tracking algorithm. Peculiar features of the proposed approach are the use of a reduced number of templates and the idea of building the database of templates on-line, thus significantly reducing the amount of on-board stored data with respect to traditional techniques. An algorithm variant is also introduced aimed at further accelerating the pose acquisition time and reducing the computational cost. Technique performance is investigated within a realistic numerical simulation environment comprising a target model, LIDAR operation and various target-chaser relative dynamics scenarios, relevant to close-proximity flight operations. Specifically, the capability of the proposed techniques to provide a pose solution suitable to initialize the tracking algorithm is demonstrated, as well as their robustness against highly variable pose conditions determined by the relative dynamics. Finally, a criterion for autonomous failure detection of the presented techniques is presented.

  4. A Model-Based 3D Template Matching Technique for Pose Acquisition of an Uncooperative Space Object

    PubMed Central

    Opromolla, Roberto; Fasano, Giancarmine; Rufino, Giancarlo; Grassi, Michele

    2015-01-01

    This paper presents a customized three-dimensional template matching technique for autonomous pose determination of uncooperative targets. This topic is relevant to advanced space applications, like active debris removal and on-orbit servicing. The proposed technique is model-based and produces estimates of the target pose without any prior pose information, by processing three-dimensional point clouds provided by a LIDAR. These estimates are then used to initialize a pose tracking algorithm. Peculiar features of the proposed approach are the use of a reduced number of templates and the idea of building the database of templates on-line, thus significantly reducing the amount of on-board stored data with respect to traditional techniques. An algorithm variant is also introduced aimed at further accelerating the pose acquisition time and reducing the computational cost. Technique performance is investigated within a realistic numerical simulation environment comprising a target model, LIDAR operation and various target-chaser relative dynamics scenarios, relevant to close-proximity flight operations. Specifically, the capability of the proposed techniques to provide a pose solution suitable to initialize the tracking algorithm is demonstrated, as well as their robustness against highly variable pose conditions determined by the relative dynamics. Finally, a criterion for autonomous failure detection of the presented techniques is presented. PMID:25785309

  5. A model-based 3D template matching technique for pose acquisition of an uncooperative space object.

    PubMed

    Opromolla, Roberto; Fasano, Giancarmine; Rufino, Giancarlo; Grassi, Michele

    2015-01-01

    This paper presents a customized three-dimensional template matching technique for autonomous pose determination of uncooperative targets. This topic is relevant to advanced space applications, like active debris removal and on-orbit servicing. The proposed technique is model-based and produces estimates of the target pose without any prior pose information, by processing three-dimensional point clouds provided by a LIDAR. These estimates are then used to initialize a pose tracking algorithm. Peculiar features of the proposed approach are the use of a reduced number of templates and the idea of building the database of templates on-line, thus significantly reducing the amount of on-board stored data with respect to traditional techniques. An algorithm variant is also introduced aimed at further accelerating the pose acquisition time and reducing the computational cost. Technique performance is investigated within a realistic numerical simulation environment comprising a target model, LIDAR operation and various target-chaser relative dynamics scenarios, relevant to close-proximity flight operations. Specifically, the capability of the proposed techniques to provide a pose solution suitable to initialize the tracking algorithm is demonstrated, as well as their robustness against highly variable pose conditions determined by the relative dynamics. Finally, a criterion for autonomous failure detection of the presented techniques is presented. PMID:25785309

  6. Inner and outer coronary vessel wall segmentation from CCTA using an active contour model with machine learning-based 3D voxel context-aware image force

    NASA Astrophysics Data System (ADS)

    Sivalingam, Udhayaraj; Wels, Michael; Rempfler, Markus; Grosskopf, Stefan; Suehling, Michael; Menze, Bjoern H.

    2016-03-01

    In this paper, we present a fully automated approach to coronary vessel segmentation, which involves calcification or soft plaque delineation in addition to accurate lumen delineation, from 3D Cardiac Computed Tomography Angiography data. Adequately virtualizing the coronary lumen plays a crucial role for simulating blood ow by means of fluid dynamics while additionally identifying the outer vessel wall in the case of arteriosclerosis is a prerequisite for further plaque compartment analysis. Our method is a hybrid approach complementing Active Contour Model-based segmentation with an external image force that relies on a Random Forest Regression model generated off-line. The regression model provides a strong estimate of the distance to the true vessel surface for every surface candidate point taking into account 3D wavelet-encoded contextual image features, which are aligned with the current surface hypothesis. The associated external image force is integrated in the objective function of the active contour model, such that the overall segmentation approach benefits from the advantages associated with snakes and from the ones associated with machine learning-based regression alike. This yields an integrated approach achieving competitive results on a publicly available benchmark data collection (Rotterdam segmentation challenge).

  7. Strain-rate sensitivity of foam materials: A numerical study using 3D image-based finite element model

    NASA Astrophysics Data System (ADS)

    Sun, Yongle; Li, Q. M.; Withers, P. J.

    2015-09-01

    Realistic simulations are increasingly demanded to clarify the dynamic behaviour of foam materials, because, on one hand, the significant variability (e.g. 20% scatter band) of foam properties and the lack of reliable dynamic test methods for foams bring particular difficulty to accurately evaluate the strain-rate sensitivity in experiments; while on the other hand numerical models based on idealised cell structures (e.g. Kelvin and Voronoi) may not be sufficiently representative to capture the actual structural effect. To overcome these limitations, the strain-rate sensitivity of the compressive and tensile properties of closed-cell aluminium Alporas foam is investigated in this study by means of meso-scale realistic finite element (FE) simulations. The FE modelling method based on X-ray computed tomography (CT) image is introduced first, as well as its applications to foam materials. Then the compression and tension of Alporas foam at a wide variety of applied nominal strain-rates are simulated using FE model constructed from the actual cell geometry obtained from the CT image. The stain-rate sensitivity of compressive strength (collapse stress) and tensile strength (0.2% offset yield point) are evaluated when considering different cell-wall material properties. The numerical results show that the rate dependence of cell-wall material is the main cause of the strain-rate hardening of the compressive and tensile strengths at low and intermediate strain-rates. When the strain-rate is sufficiently high, shock compression is initiated, which significantly enhances the stress at the loading end and has complicated effect on the stress at the supporting end. The plastic tensile wave effect is evident at high strain-rates, but shock tension cannot develop in Alporas foam due to the softening associated with single fracture process zone occurring in tensile response. In all cases the micro inertia of individual cell walls subjected to localised deformation is found to

  8. Automatic 3D motion estimation of left ventricle from C-arm rotational angiocardiography using a prior motion model and learning based boundary detector.

    PubMed

    Chen, Mingqing; Zheng, Yefeng; Wang, Yang; Mueller, Kerstin; Lauritsch, Guenter

    2013-01-01

    Compared to pre-operative imaging modalities, it is more convenient to estimate the current cardiac physiological status from C-arm angiocardiography since C-arm is a widely used intra-operative imaging modality to guide many cardiac interventions. The 3D shape and motion of the left ventricle (LV) estimated from rotational angiocardiography provide important cardiac function measurements, e.g., ejection fraction and myocardium motion dyssynchrony. However, automatic estimation of the 3D LV motion is difficult since all anatomical structures overlap on the 2D X-ray projections and the nearby confounding strong image boundaries (e.g., pericardium) often cause ambiguities to LV endocardium boundary detection. In this paper, a new framework is proposed to overcome the aforementioned difficulties: (1) A new learning-based boundary detector is developed by training a boosting boundary classifier combined with the principal component analysis of a local image patch; (2) The prior LV motion model is learned from a set of dynamic cardiac computed tomography (CT) sequences to provide a good initial estimate of the 3D LV shape of different cardiac phases; (3) The 3D motion trajectory is learned for each mesh point; (4) All these components are integrated into a multi-surface graph optimization method to extract the globally coherent motion. The method is tested on seven patient scans, showing significant improvement on the ambiguous boundary cases with a detection accuracy of 2.87 +/- 1.00 mm on LV endocardium boundary delineation in the 2D projections.

  9. Automatic 3D motion estimation of left ventricle from C-arm rotational angiocardiography using a prior motion model and learning based boundary detector.

    PubMed

    Chen, Mingqing; Zheng, Yefeng; Wang, Yang; Mueller, Kerstin; Lauritsch, Guenter

    2013-01-01

    Compared to pre-operative imaging modalities, it is more convenient to estimate the current cardiac physiological status from C-arm angiocardiography since C-arm is a widely used intra-operative imaging modality to guide many cardiac interventions. The 3D shape and motion of the left ventricle (LV) estimated from rotational angiocardiography provide important cardiac function measurements, e.g., ejection fraction and myocardium motion dyssynchrony. However, automatic estimation of the 3D LV motion is difficult since all anatomical structures overlap on the 2D X-ray projections and the nearby confounding strong image boundaries (e.g., pericardium) often cause ambiguities to LV endocardium boundary detection. In this paper, a new framework is proposed to overcome the aforementioned difficulties: (1) A new learning-based boundary detector is developed by training a boosting boundary classifier combined with the principal component analysis of a local image patch; (2) The prior LV motion model is learned from a set of dynamic cardiac computed tomography (CT) sequences to provide a good initial estimate of the 3D LV shape of different cardiac phases; (3) The 3D motion trajectory is learned for each mesh point; (4) All these components are integrated into a multi-surface graph optimization method to extract the globally coherent motion. The method is tested on seven patient scans, showing significant improvement on the ambiguous boundary cases with a detection accuracy of 2.87 +/- 1.00 mm on LV endocardium boundary delineation in the 2D projections. PMID:24505748

  10. Late rectal bleeding after 3D-CRT for prostate cancer: development of a neural-network-based predictive model

    NASA Astrophysics Data System (ADS)

    Tomatis, S.; Rancati, T.; Fiorino, C.; Vavassori, V.; Fellin, G.; Cagna, E.; Mauro, F. A.; Girelli, G.; Monti, A.; Baccolini, M.; Naldi, G.; Bianchi, C.; Menegotti, L.; Pasquino, M.; Stasi, M.; Valdagni, R.

    2012-03-01

    ANNs are superior to those achieved with LR when predicting late radiotherapy-related rectal bleeding. The future introduction of patient-related personal characteristics, such as gene expression profiles, might improve the predictive power of statistical classifiers. More refined morphological aspects of the dose distribution, such as dose surface mapping, might also enhance the overall performance of ANN-based predictive models.

  11. Modeling 3D facial shape from DNA.

    PubMed

    Claes, Peter; Liberton, Denise K; Daniels, Katleen; Rosana, Kerri Matthes; Quillen, Ellen E; Pearson, Laurel N; McEvoy, Brian; Bauchet, Marc; Zaidi, Arslan A; Yao, Wei; Tang, Hua; Barsh, Gregory S; Absher, Devin M; Puts, David A; Rocha, Jorge; Beleza, Sandra; Pereira, Rinaldo W; Baynam, Gareth; Suetens, Paul; Vandermeulen, Dirk; Wagner, Jennifer K; Boster, James S; Shriver, Mark D

    2014-03-01

    Human facial diversity is substantial, complex, and largely scientifically unexplained. We used spatially dense quasi-landmarks to measure face shape in population samples with mixed West African and European ancestry from three locations (United States, Brazil, and Cape Verde). Using bootstrapped response-based imputation modeling (BRIM), we uncover the relationships between facial variation and the effects of sex, genomic ancestry, and a subset of craniofacial candidate genes. The facial effects of these variables are summarized as response-based imputed predictor (RIP) variables, which are validated using self-reported sex, genomic ancestry, and observer-based facial ratings (femininity and proportional ancestry) and judgments (sex and population group). By jointly modeling sex, genomic ancestry, and genotype, the independent effects of particular alleles on facial features can be uncovered. Results on a set of 20 genes showing significant effects on facial features provide support for this approach as a novel means to identify genes affecting normal-range facial features and for approximating the appearance of a face from genetic markers. PMID:24651127

  12. Modeling 3D Facial Shape from DNA

    PubMed Central

    Claes, Peter; Liberton, Denise K.; Daniels, Katleen; Rosana, Kerri Matthes; Quillen, Ellen E.; Pearson, Laurel N.; McEvoy, Brian; Bauchet, Marc; Zaidi, Arslan A.; Yao, Wei; Tang, Hua; Barsh, Gregory S.; Absher, Devin M.; Puts, David A.; Rocha, Jorge; Beleza, Sandra; Pereira, Rinaldo W.; Baynam, Gareth; Suetens, Paul; Vandermeulen, Dirk; Wagner, Jennifer K.; Boster, James S.; Shriver, Mark D.

    2014-01-01

    Human facial diversity is substantial, complex, and largely scientifically unexplained. We used spatially dense quasi-landmarks to measure face shape in population samples with mixed West African and European ancestry from three locations (United States, Brazil, and Cape Verde). Using bootstrapped response-based imputation modeling (BRIM), we uncover the relationships between facial variation and the effects of sex, genomic ancestry, and a subset of craniofacial candidate genes. The facial effects of these variables are summarized as response-based imputed predictor (RIP) variables, which are validated using self-reported sex, genomic ancestry, and observer-based facial ratings (femininity and proportional ancestry) and judgments (sex and population group). By jointly modeling sex, genomic ancestry, and genotype, the independent effects of particular alleles on facial features can be uncovered. Results on a set of 20 genes showing significant effects on facial features provide support for this approach as a novel means to identify genes affecting normal-range facial features and for approximating the appearance of a face from genetic markers. PMID:24651127

  13. A combination of pharmacophore modeling, atom-based 3D-QSAR, molecular docking and molecular dynamics simulation studies on PDE4 enzyme inhibitors.

    PubMed

    Tripuraneni, Naga Srinivas; Azam, Mohammed Afzal

    2016-11-01

    Phosphodiesterases 4 enzyme is an attractive target for the design of anti-inflammatory and bronchodilator agents. In the present study, pharmacophore and atom-based 3D-QSAR studies were carried out for pyrazolopyridine and quinoline derivatives using Schrödinger suite 2014-3. A four-point pharmacophore model was developed using 74 molecules having pIC50 ranging from 10.1 to 4.5. The best four feature model consists of one hydrogen bond acceptor, two aromatic rings, and one hydrophobic group. The pharmacophore hypothesis yielded a statistically significant 3D-QSAR model, with a high correlation coefficient (R(2 )= .9949), cross validation coefficient (Q(2 )= .7291), and Pearson-r (.9107) at six component partial least square factor. The external validation indicated that our QSAR model possessed high predictive power with R(2) value of .88. The generated model was further validated by enrichment studies using the decoy test. Molecular docking, free energy calculation, and molecular dynamics (MD) simulation studies have been performed to explore the putative binding modes of these ligands. A 10-ns MD simulation confirmed the docking results of both stability of the 1XMU-ligand complex and the presumed active conformation. Outcomes of the present study provide insight in designing novel molecules with better PDE4 inhibitory activity.

  14. Towards a 3d Spatial Urban Energy Modelling Approach

    NASA Astrophysics Data System (ADS)

    Bahu, J.-M.; Koch, A.; Kremers, E.; Murshed, S. M.

    2013-09-01

    Today's needs to reduce the environmental impact of energy use impose dramatic changes for energy infrastructure and existing demand patterns (e.g. buildings) corresponding to their specific context. In addition, future energy systems are expected to integrate a considerable share of fluctuating power sources and equally a high share of distributed generation of electricity. Energy system models capable of describing such future systems and allowing the simulation of the impact of these developments thus require a spatial representation in order to reflect the local context and the boundary conditions. This paper describes two recent research approaches developed at EIFER in the fields of (a) geo-localised simulation of heat energy demand in cities based on 3D morphological data and (b) spatially explicit Agent-Based Models (ABM) for the simulation of smart grids. 3D city models were used to assess solar potential and heat energy demand of residential buildings which enable cities to target the building refurbishment potentials. Distributed energy systems require innovative modelling techniques where individual components are represented and can interact. With this approach, several smart grid demonstrators were simulated, where heterogeneous models are spatially represented. Coupling 3D geodata with energy system ABMs holds different advantages for both approaches. On one hand, energy system models can be enhanced with high resolution data from 3D city models and their semantic relations. Furthermore, they allow for spatial analysis and visualisation of the results, with emphasis on spatially and structurally correlations among the different layers (e.g. infrastructure, buildings, administrative zones) to provide an integrated approach. On the other hand, 3D models can benefit from more detailed system description of energy infrastructure, representing dynamic phenomena and high resolution models for energy use at component level. The proposed modelling strategies

  15. 3D model of the Bernese Part of the Swiss Molasse Basin: visualization of uncertainties in a 3D model

    NASA Astrophysics Data System (ADS)

    Mock, Samuel; Allenbach, Robin; Reynolds, Lance; Wehrens, Philip; Kurmann-Matzenauer, Eva; Kuhn, Pascal; Michael, Salomè; Di Tommaso, Gennaro; Herwegh, Marco

    2016-04-01

    The Swiss Molasse Basin comprises the western and central part of the North Alpine Foreland Basin. In recent years it has come under closer scrutiny due to its promising geopotentials such as geothermal energy and CO2 sequestration. In order to adress these topics good knowledge of the subsurface is a key prerequisite. For that matter, geological 3D models serve as valuable tools. In collaboration with the Swiss Geological Survey (swisstopo) and as part of the project GeoMol CH, a geological 3D model of the Swiss Molasse Basin in the Canton of Bern has been built. The model covers an area of 1810 km2and reaches depth of up to 6.7 km. It comprises 10 major Cenozoic and Mesozoic units and numerous faults. The 3D model is mainly based on 2D seismic data complemented by information from few deep wells. Additionally, data from geological maps and profiles were used for refinement at shallow depths. In total, 1163 km of reflection seismic data, along 77 seismic lines, have been interpreted by different authors with respect to stratigraphy and structures. Both, horizons and faults, have been interpreted in 2D and modelled in 3D using IHS's Kingdom Suite and Midland Valley's MOVE software packages, respectively. Given the variable degree of subsurface information available, each 3D model is subject of uncertainty. With the primary input data coming from interpretation of reflection seismic data, a variety of uncertainties comes into play. Some of them are difficult to address (e.g. author's style of interpretation) while others can be quantified (e.g. mis-tie correction, well-tie). An important source of uncertainties is the quality of seismic data; this affects the traceability and lateral continuation of seismic reflectors. By defining quality classes we can semi-quantify this source of uncertainty. In order to visualize the quality and density of the input data in a meaningful way, we introduce quality-weighted data density maps. In combination with the geological 3D

  16. MRI Volume Fusion Based on 3D Shearlet Decompositions

    PubMed Central

    Duan, Chang; Wang, Shuai; Wang, Xue Gang; Huang, Qi Hong

    2014-01-01

    Nowadays many MRI scans can give 3D volume data with different contrasts, but the observers may want to view various contrasts in the same 3D volume. The conventional 2D medical fusion methods can only fuse the 3D volume data layer by layer, which may lead to the loss of interframe correlative information. In this paper, a novel 3D medical volume fusion method based on 3D band limited shearlet transform (3D BLST) is proposed. And this method is evaluated upon MRI T2* and quantitative susceptibility mapping data of 4 human brains. Both the perspective impression and the quality indices indicate that the proposed method has a better performance than conventional 2D wavelet, DT CWT, and 3D wavelet, DT CWT based fusion methods. PMID:24817880

  17. Aortic valve and ascending aortic root modeling from 3D and 3D+t CT

    NASA Astrophysics Data System (ADS)

    Grbic, Saša; Ionasec, Razvan I.; Zäuner, Dominik; Zheng, Yefeng; Georgescu, Bogdan; Comaniciu, Dorin

    2010-02-01

    Aortic valve disorders are the most frequent form of valvular heart disorders (VHD) affecting nearly 3% of the global population. A large fraction among them are aortic root diseases, such as aortic root aneurysm, often requiring surgical procedures (valve-sparing) as a treatment. Visual non-invasive assessment techniques could assist during pre-selection of adequate patients, planning procedures and afterward evaluation of the same. However state of the art approaches try to model a rather short part of the aortic root, insufficient to assist the physician during intervention planning. In this paper we propose a novel approach for morphological and functional quantification of both the aortic valve and the ascending aortic root. A novel physiological shape model is introduced, consisting of the aortic valve root, leaflets and the ascending aortic root. The model parameters are hierarchically estimated using robust and fast learning-based methods. Experiments performed on 63 CT sequences (630 Volumes) and 20 single phase CT volumes demonstrated an accuracy of 1.45mm and an performance of 30 seconds (3D+t) for this approach. To the best of our knowledge this is the first time a complete model of the aortic valve (including leaflets) and the ascending aortic root, estimated from CT, has been proposed.

  18. Alginate based 3D hydrogels as an in vitro co-culture model platform for the toxicity screening of new chemical entities

    SciTech Connect

    Lan, Shih-Feng; Starly, Binil

    2011-10-01

    Prediction of human response to potential therapeutic drugs is through conventional methods of in vitro cell culture assays and expensive in vivo animal testing. Alternatives to animal testing require sophisticated in vitro model systems that must replicate in vivo like function for reliable testing applications. Advancements in biomaterials have enabled the development of three-dimensional (3D) cell encapsulated hydrogels as in vitro drug screening tissue model systems. In this study, we have developed an in vitro platform to enable high density 3D culture of liver cells combined with a monolayer growth of target breast cancer cell line (MCF-7) in a static environment as a representative example of screening drug compounds for hepatotoxicity and drug efficacy. Alginate hydrogels encapsulated with serial cell densities of HepG2 cells (10{sup 5}-10{sup 8} cells/ml) are supported by a porous poly-carbonate disc platform and co-cultured with MCF-7 cells within standard cell culture plates during a 3 day study period. The clearance rates of drug transformation by HepG2 cells are measured using a coumarin based pro-drug. The platform was used to test for HepG2 cytotoxicity 50% (CT{sub 50}) using commercially available drugs which further correlated well with published in vivo LD{sub 50} values. The developed test platform allowed us to evaluate drug dose concentrations to predict hepatotoxicity and its effect on the target cells. The in vitro 3D co-culture platform provides a scalable and flexible approach to test multiple-cell types in a hybrid setting within standard cell culture plates which may open up novel 3D in vitro culture techniques to screen new chemical entity compounds. - Graphical abstract: Display Omitted Highlights: > A porous support disc design to support the culture of desired cells in 3D hydrogels. > Demonstrated the co-culture of two cell types within standard cell-culture plates. > A scalable, low cost approach to toxicity screening involving

  19. Assessing the RELAPS-3D Heat Conduction Enclosure Model

    SciTech Connect

    McCann, Larry D.

    2008-09-30

    Three heat conduction problems that have exact solutions are modeled with RELAP5-3D using the conduction enclosure model. These comparisons are designed to be used in the RELAP5-3D development assessment scheduled to be completed in 2009. It is shown that with proper input choices and adequate model detail the exact solutions can be matched. In addition, this analysis identified an error and the required correction in the cylindrical and spherical heat conductor models in RELAP5-3D which will be corrected in a future version of RELAP5-3D.

  20. Gesture Interaction Browser-Based 3D Molecular Viewer.

    PubMed

    Virag, Ioan; Stoicu-Tivadar, Lăcrămioara; Crişan-Vida, Mihaela

    2016-01-01

    The paper presents an open source system that allows the user to interact with a 3D molecular viewer using associated hand gestures for rotating, scaling and panning the rendered model. The novelty of this approach is that the entire application is browser-based and doesn't require installation of third party plug-ins or additional software components in order to visualize the supported chemical file formats. This kind of solution is suitable for instruction of users in less IT oriented environments, like medicine or chemistry. For rendering various molecular geometries our team used GLmol (a molecular viewer written in JavaScript). The interaction with the 3D models is made with Leap Motion controller that allows real-time tracking of the user's hand gestures. The first results confirmed that the resulting application leads to a better way of understanding various types of translational bioinformatics related problems in both biomedical research and education. PMID:27350455

  1. Gesture Interaction Browser-Based 3D Molecular Viewer.

    PubMed

    Virag, Ioan; Stoicu-Tivadar, Lăcrămioara; Crişan-Vida, Mihaela

    2016-01-01

    The paper presents an open source system that allows the user to interact with a 3D molecular viewer using associated hand gestures for rotating, scaling and panning the rendered model. The novelty of this approach is that the entire application is browser-based and doesn't require installation of third party plug-ins or additional software components in order to visualize the supported chemical file formats. This kind of solution is suitable for instruction of users in less IT oriented environments, like medicine or chemistry. For rendering various molecular geometries our team used GLmol (a molecular viewer written in JavaScript). The interaction with the 3D models is made with Leap Motion controller that allows real-time tracking of the user's hand gestures. The first results confirmed that the resulting application leads to a better way of understanding various types of translational bioinformatics related problems in both biomedical research and education.

  2. Generation and use of human 3D-CAD models

    NASA Astrophysics Data System (ADS)

    Grotepass, Juergen; Speyer, Hartmut; Kaiser, Ralf

    2002-05-01

    Individualized Products are one of the ten mega trends of the 21st Century with human modeling as the key issue for tomorrow's design and product development. The use of human modeling software for computer based ergonomic simulations within the production process increases quality while reducing costs by 30- 50 percent and shortening production time. This presentation focuses on the use of human 3D-CAD models for both, the ergonomic design of working environments and made to measure garment production. Today, the entire production chain can be designed, individualized models generated and analyzed in 3D computer environments. Anthropometric design for ergonomics is matched to human needs, thus preserving health. Ergonomic simulation includes topics as human vision, reachability, kinematics, force and comfort analysis and international design capabilities. In German more than 17 billions of Mark are moved to other industries, because clothes do not fit. Individual clothing tailored to the customer's preference means surplus value, pleasure and perfect fit. The body scanning technology is the key to generation and use of human 3D-CAD models for both, the ergonomic design of working environments and made to measure garment production.

  3. Comparing a quasi-3D to a full 3D nearshore circulation model: SHORECIRC and ROMS

    USGS Publications Warehouse

    Haas, K.A.; Warner, J.C.

    2009-01-01

    Predictions of nearshore and surf zone processes are important for determining coastal circulation, impacts of storms, navigation, and recreational safety. Numerical modeling of these systems facilitates advancements in our understanding of coastal changes and can provide predictive capabilities for resource managers. There exists many nearshore coastal circulation models, however they are mostly limited or typically only applied as depth integrated models. SHORECIRC is an established surf zone circulation model that is quasi-3D to allow the effect of the variability in the vertical structure of the currents while maintaining the computational advantage of a 2DH model. Here we compare SHORECIRC to ROMS, a fully 3D ocean circulation model which now includes a three dimensional formulation for the wave-driven flows. We compare the models with three different test applications for: (i) spectral waves approaching a plane beach with an oblique angle of incidence; (ii) monochromatic waves driving longshore currents in a laboratory basin; and (iii) monochromatic waves on a barred beach with rip channels in a laboratory basin. Results identify that the models are very similar for the depth integrated flows and qualitatively consistent for the vertically varying components. The differences are primarily the result of the vertically varying radiation stress utilized by ROMS and the utilization of long wave theory for the radiation stress formulation in vertical varying momentum balance by SHORECIRC. The quasi-3D model is faster, however the applicability of the fully 3D model allows it to extend over a broader range of processes, temporal, and spatial scales. ?? 2008 Elsevier Ltd.

  4. 3-D measuring of engine camshaft based on machine vision

    NASA Astrophysics Data System (ADS)

    Qiu, Jianxin; Tan, Liang; Xu, Xiaodong

    2008-12-01

    The non-touch 3D measuring based on machine vision is introduced into camshaft precise measuring. Currently, because CCD 3-dimensional measuring can't meet requirements for camshaft's measuring precision, it's necessary to improve its measuring precision. In this paper, we put forward a method to improve the measuring method. A Multi-Character Match method based on the Polygonal Non-regular model is advanced with the theory of Corner Extraction and Corner Matching .This method has solved the problem of the matching difficulty and a low precision. In the measuring process, the use of the Coded marked Point method and Self-Character Match method can bring on this problem. The 3D measuring experiment on camshaft, which based on the Multi-Character Match method of the Polygonal Non-regular model, proves that the normal average measuring precision is increased to a new level less than 0.04mm in the point-clouds photo merge. This measuring method can effectively increase the 3D measuring precision of the binocular CCD.

  5. a Fast Method for Measuring the Similarity Between 3d Model and 3d Point Cloud

    NASA Astrophysics Data System (ADS)

    Zhang, Zongliang; Li, Jonathan; Li, Xin; Lin, Yangbin; Zhang, Shanxin; Wang, Cheng

    2016-06-01

    This paper proposes a fast method for measuring the partial Similarity between 3D Model and 3D point Cloud (SimMC). It is crucial to measure SimMC for many point cloud-related applications such as 3D object retrieval and inverse procedural modelling. In our proposed method, the surface area of model and the Distance from Model to point Cloud (DistMC) are exploited as measurements to calculate SimMC. Here, DistMC is defined as the weighted distance of the distances between points sampled from model and point cloud. Similarly, Distance from point Cloud to Model (DistCM) is defined as the average distance of the distances between points in point cloud and model. In order to reduce huge computational burdens brought by calculation of DistCM in some traditional methods, we define SimMC as the ratio of weighted surface area of model to DistMC. Compared to those traditional SimMC measuring methods that are only able to measure global similarity, our method is capable of measuring partial similarity by employing distance-weighted strategy. Moreover, our method is able to be faster than other partial similarity assessment methods. We demonstrate the superiority of our method both on synthetic data and laser scanning data.

  6. Facial-paralysis diagnostic system based on 3D reconstruction

    NASA Astrophysics Data System (ADS)

    Khairunnisaa, Aida; Basah, Shafriza Nisha; Yazid, Haniza; Basri, Hassrizal Hassan; Yaacob, Sazali; Chin, Lim Chee

    2015-05-01

    The diagnostic process of facial paralysis requires qualitative assessment for the classification and treatment planning. This result is inconsistent assessment that potential affect treatment planning. We developed a facial-paralysis diagnostic system based on 3D reconstruction of RGB and depth data using a standard structured-light camera - Kinect 360 - and implementation of Active Appearance Models (AAM). We also proposed a quantitative assessment for facial paralysis based on triangular model. In this paper, we report on the design and development process, including preliminary experimental results. Our preliminary experimental results demonstrate the feasibility of our quantitative assessment system to diagnose facial paralysis.

  7. A 3D Geometry Model Search Engine to Support Learning

    ERIC Educational Resources Information Center

    Tam, Gary K. L.; Lau, Rynson W. H.; Zhao, Jianmin

    2009-01-01

    Due to the popularity of 3D graphics in animation and games, usage of 3D geometry deformable models increases dramatically. Despite their growing importance, these models are difficult and time consuming to build. A distance learning system for the construction of these models could greatly facilitate students to learn and practice at different…

  8. 3D cartographic modeling of the Alpine arc

    NASA Astrophysics Data System (ADS)

    Vouillamoz, Naomi; Sue, Christian; Champagnac, Jean-Daniel; Calcagno, Philippe

    2012-12-01

    We built a 3D cartography of the Alpine arc, a highly non-cylindrical mountain belt, using the 3D GeoModeller of the BRGM (French geological survey). The model allows to handle the large-scale 3D structure of seventeen major crustal units of the belt (from the lower crust to the sedimentary cover nappes), and two main discontinuities (the Insubric Line and the Crustal Penninic Front). It provides a unique document to better understand their structural relationships and to produce new sections. The study area comprises the western Alpine arc, from the Jura to the Northwest, up to the Bergell granite intrusion and the Lepontine Dome to the East, and is limited to the South by the Ligurian basin. The model is limited vertically 10 km above sea level at the top, and the moho interface at the bottom. We discarded the structural relationships between the Alps sensus stricto and the surrounding geodynamic systems such as the Rhine graben or the connection with the Apennines. The 3D-model is based on the global integration of various data such as the DEM of the Alps, the moho isobaths, the simplified geological and tectonic maps of the belt, the crustal cross-sections ECORS-CROP and NFP-20, and complementary cross-sections specifically built to precise local complexities. The database has first been integrated in a GIS-project to prepare their implementation in the GeoModeller, by homogenizing the different spatial referencing systems. The global model is finally interpolated from all these data, using the potential field method. The final document is a new tri-dimensional cartography that would be used as input for further alpine studies.

  9. Generation of fluoroscopic 3D images with a respiratory motion model based on an external surrogate signal.

    PubMed

    Hurwitz, Martina; Williams, Christopher L; Mishra, Pankaj; Rottmann, Joerg; Dhou, Salam; Wagar, Matthew; Mannarino, Edward G; Mak, Raymond H; Lewis, John H

    2015-01-21

    Respiratory motion during radiotherapy can cause uncertainties in definition of the target volume and in estimation of the dose delivered to the target and healthy tissue. In this paper, we generate volumetric images of the internal patient anatomy during treatment using only the motion of a surrogate signal. Pre-treatment four-dimensional CT imaging is used to create a patient-specific model correlating internal respiratory motion with the trajectory of an external surrogate placed on the chest. The performance of this model is assessed with digital and physical phantoms reproducing measured irregular patient breathing patterns. Ten patient breathing patterns are incorporated in a digital phantom. For each patient breathing pattern, the model is used to generate images over the course of thirty seconds. The tumor position predicted by the model is compared to ground truth information from the digital phantom. Over the ten patient breathing patterns, the average absolute error in the tumor centroid position predicted by the motion model is 1.4 mm. The corresponding error for one patient breathing pattern implemented in an anthropomorphic physical phantom was 0.6 mm. The global voxel intensity error was used to compare the full image to the ground truth and demonstrates good agreement between predicted and true images. The model also generates accurate predictions for breathing patterns with irregular phases or amplitudes.

  10. 3-D Numerical Modeling of a Complex Salt Structure

    SciTech Connect

    House, L.; Larsen, S.; Bednar, J.B.

    2000-02-17

    Reliably processing, imaging, and interpreting seismic data from areas with complicated structures, such as sub-salt, requires a thorough understanding of elastic as well as acoustic wave propagation. Elastic numerical modeling is an essential tool to develop that understanding. While 2-D elastic modeling is in common use, 3-D elastic modeling has been too computationally intensive to be used routinely. Recent advances in computing hardware, including commodity-based hardware, have substantially reduced computing costs. These advances are making 3-D elastic numerical modeling more feasible. A series of example 3-D elastic calculations were performed using a complicated structure, the SEG/EAGE salt structure. The synthetic traces show that the effects of shear wave propagation can be important for imaging and interpretation of images, and also for AVO and other applications that rely on trace amplitudes. Additional calculations are needed to better identify and understand the complex wave propagation effects produced in complicated structures, such as the SEG/EAGE salt structure.

  11. Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC

    NASA Astrophysics Data System (ADS)

    Monga, O.; Garnier, P.; Pot, V.; Coucheney, E.; Nunan, N.; Otten, W.; Chenu, C.

    2014-04-01

    This paper deals with the simulation of microbial degradation of organic matter in soil within the pore space at a microscopic scale. Pore space was analysed with micro-computed tomography and described using a sphere network coming from a geometrical modelling algorithm. The biological model was improved regarding previous work in order to include the transformation of dissolved organic compounds and diffusion processes. We tested our model using experimental results of a simple substrate decomposition experiment (fructose) within a simple medium (sand) in the presence of different bacterial strains. Separate incubations were carried out in microcosms using five different bacterial communities at two different water potentials of -10 and -100 cm of water. We calibrated the biological parameters by means of experimental data obtained at high water content, and we tested the model without changing any parameters at low water content. Same as for the experimental data, our simulation results showed that the decrease in water content caused a decrease of mineralization rate. The model was able to simulate the decrease of connectivity between substrate and microorganism due the decrease of water content.

  12. Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion based model MOSAIC

    NASA Astrophysics Data System (ADS)

    Monga, O.; Garnier, P.; Pot, V.; Coucheney, E.; Nunan, N.; Otten, W.; Chenu, C.

    2013-10-01

    This paper deals with the simulation of microbial degradation in soil within pore space at microscopic scale. Pore space was described using sphere network coming from a geometrical modeling algorithm. The biological model was improved regarding previous work in order to include transformation of dissolved organic compounds and diffusion processes. Our model was tested using experimental results of a simple substrate decomposition (Fructose) within a simple media (the sand). Diverse microbial communities were inoculated. Separated incubations in microcosms were carried out using 5 different bacterial communities at 2 different water potentials of -10 cm and -100 cm of water. We calibrated the biological parameters by means of experimental data obtained at high water content and we tested the model without any parameters change at low water content. Same as for experimental data, our simulation results showed the decrease in water content involved the decrease of mineralisation. The model was able to simulate the decrease of connectivity between substrate and microorganism due the decrease of water content.

  13. 3D PIC Modeling of Microcavity Discharge

    NASA Astrophysics Data System (ADS)

    Hopkins, Matthew; Manginell, Ronald; Moore, Christopher; Yee, Benjamin; Moorman, Matthew

    2015-09-01

    We present a number of techniques and challenges in simulating the transient behavior of a microcavity discharge. Our microcavities are typically cylindrical with diameters approximately 50 - 100 μm, heights of 50 - 200 μm, pressure near atmospheric, and operate at a few hundred volts. We employ a fully kinetic simulation methodology, the Particle-in-Cell (PIC) method, with interparticle collisions handled via methods based on direct simulation Monte Carlo (DSMC). In particular, we explicitly include kinetic electrons. Some of the challenges we encounter include variations in number densities, external circuit coupling, and time step resolution constraints. By employing dynamic particle weighting (particle weights vary over time by species and location) we can mitigate some of the challenges modeling systems with 107 variations in number densities. Smoothing mechanisms have been used to attempt to mitigate external circuit response. We perform our simulations on hundreds or thousands of processing cores to accommodate the computational work inherent in using relatively small time step sizes (e.g., 50 fs for a 100 ns calculation). In addition, particle weighting issues inherent to three-dimensional low temperature plasma systems will be mentioned. Sandia National Laboratories is a multi-program laboratory managed and operated by Sandia Corporation, a wholly owned subsidiary of Lockheed Martin Corporation, for the U.S. Department of Energy's NNSA under Contract DE-AC04-94AL85000.

  14. Evaluation of the Quantitative Accuracy of 3D Reconstruction of Edentulous Jaw Models with Jaw Relation Based on Reference Point System Alignment

    PubMed Central

    Li, Weiwei; Yuan, Fusong; Lv, Peijun; Wang, Yong; Sun, Yuchun

    2015-01-01

    Objectives To apply contact measurement and reference point system (RPS) alignment techniques to establish a method for 3D reconstruction of the edentulous jaw models with centric relation and to quantitatively evaluate its accuracy. Methods Upper and lower edentulous jaw models were clinically prepared, 10 pairs of resin cylinders with same size were adhered to axial surfaces of upper and lower models. The occlusal bases and the upper and lower jaw models were installed in the centric relation position. Faro Edge 1.8m was used to directly obtain center points of the base surface of the cylinders (contact method). Activity 880 dental scanner was used to obtain 3D data of the cylinders and the center points were fitted (fitting method). 3 pairs of center points were used to align the virtual model to centric relation. An observation coordinate system was interactively established. The straight-line distances in the X (horizontal left/right), Y (horizontal anterior/posterior), and Z (vertical) between the remaining 7 pairs of center points derived from contact method and fitting method were measured respectively and analyzed using a paired t-test. Results The differences of the straight-line distances of the remaining 7 pairs of center points between the two methods were X: 0.074 ± 0.107 mm, Y: 0.168 ± 0.176 mm, and Z: −0.003± 0.155 mm. The results of paired t-test were X and Z: p >0.05, Y: p <0.05. Conclusion By using contact measurement and the reference point system alignment technique, highly accurate reconstruction of the vertical distance and centric relation of a digital edentulous jaw model can be achieved, which meets the design and manufacturing requirements of the complete dentures. The error of horizontal anterior/posterior jaw relation was relatively large. PMID:25659133

  15. RCCS Bioreactor-Based Modelled Microgravity Induces Significant Changes on In Vitro 3D Neuroglial Cell Cultures

    PubMed Central

    Mazzoleni, Giovanna; Fanò-Illic, Giorgio; Mariggiò, Maria A.

    2015-01-01

    We propose a human-derived neuro-/glial cell three-dimensional in vitro model to investigate the effects of microgravity on cell-cell interactions. A rotary cell-culture system (RCCS) bioreactor was used to generate a modelled microgravity environment, and morphofunctional features of glial-like GL15 and neuronal-like SH-SY5Y cells in three-dimensional individual cultures (monotypic aggregates) and cocultures (heterotypic aggregates) were analysed. Cell survival was maintained within all cell aggregates over 2 weeks of culture. Moreover, compared to cells as traditional static monolayers, cell aggregates cultured under modelled microgravity showed increased expression of specific differentiation markers (e.g., GL15 cells: GFAP, S100B; SH-SY5Y cells: GAP43) and modulation of functional cell-cell interactions (e.g., N-CAM and Cx43 expression and localisation). In conclusion, this culture model opens a wide range of specific investigations at the molecular, biochemical, and morphological levels, and it represents an important tool for in vitro studies into dynamic interactions and responses of nervous system cell components to microgravity environmental conditions. PMID:25654124

  16. RCCS bioreactor-based modelled microgravity induces significant changes on in vitro 3D neuroglial cell cultures.

    PubMed

    Morabito, Caterina; Steimberg, Nathalie; Mazzoleni, Giovanna; Guarnieri, Simone; Fanò-Illic, Giorgio; Mariggiò, Maria A

    2015-01-01

    We propose a human-derived neuro-/glial cell three-dimensional in vitro model to investigate the effects of microgravity on cell-cell interactions. A rotary cell-culture system (RCCS) bioreactor was used to generate a modelled microgravity environment, and morphofunctional features of glial-like GL15 and neuronal-like SH-SY5Y cells in three-dimensional individual cultures (monotypic aggregates) and cocultures (heterotypic aggregates) were analysed. Cell survival was maintained within all cell aggregates over 2 weeks of culture. Moreover, compared to cells as traditional static monolayers, cell aggregates cultured under modelled microgravity showed increased expression of specific differentiation markers (e.g., GL15 cells: GFAP, S100B; SH-SY5Y cells: GAP43) and modulation of functional cell-cell interactions (e.g., N-CAM and Cx43 expression and localisation). In conclusion, this culture model opens a wide range of specific investigations at the molecular, biochemical, and morphological levels, and it represents an important tool for in vitro studies into dynamic interactions and responses of nervous system cell components to microgravity environmental conditions. PMID:25654124

  17. RCCS bioreactor-based modelled microgravity induces significant changes on in vitro 3D neuroglial cell cultures.

    PubMed

    Morabito, Caterina; Steimberg, Nathalie; Mazzoleni, Giovanna; Guarnieri, Simone; Fanò-Illic, Giorgio; Mariggiò, Maria A

    2015-01-01

    We propose a human-derived neuro-/glial cell three-dimensional in vitro model to investigate the effects of microgravity on cell-cell interactions. A rotary cell-culture system (RCCS) bioreactor was used to generate a modelled microgravity environment, and morphofunctional features of glial-like GL15 and neuronal-like SH-SY5Y cells in three-dimensional individual cultures (monotypic aggregates) and cocultures (heterotypic aggregates) were analysed. Cell survival was maintained within all cell aggregates over 2 weeks of culture. Moreover, compared to cells as traditional static monolayers, cell aggregates cultured under modelled microgravity showed increased expression of specific differentiation markers (e.g., GL15 cells: GFAP, S100B; SH-SY5Y cells: GAP43) and modulation of functional cell-cell interactions (e.g., N-CAM and Cx43 expression and localisation). In conclusion, this culture model opens a wide range of specific investigations at the molecular, biochemical, and morphological levels, and it represents an important tool for in vitro studies into dynamic interactions and responses of nervous system cell components to microgravity environmental conditions.

  18. 3D modelling of the Black Sea ecosystem

    NASA Astrophysics Data System (ADS)

    Capet, A.; Gregoire, M.; Beckers, J.-M.; Joassin, P.; Naithani, J.; Soetart, K.

    2009-04-01

    A coupled physical-biogeochemical model has been developed to simulate the ecosystem of the Black Sea at the end of the 80's when eutrophication and invasion by gelatinous organisms seriously affected the stability and dynamics of the system. The biogeochemical model describes the cycle of carbon, nitrogen, silicate, oxygen and phosphorus through the foodweb from bacteria to gelatinous carnivores and explicitly represents processes in the anoxic layer down to the bottom. For calibration and analyses purposes, the coupled model has first been run in 1D at several places in the Black Sea. The biogeochemical model involves some hundred parameters which have been first calibrated by hand using published values. Then, an identifiability analysis has been performed in order to determine a subset of 15 identifiable parameters. An automatic calibration subroutine has been used to fine tune these parameters. In 1D, the model solution exhibits a complex dynamics with several years of transient adjustment. This complexity is imparted by the explicit modelling of top predators. The model has been calibrated and validated using a large set of data available in the Black Sea TU Ocean Base. The calibrated biogeochemical model is implemented in a 3D hydrodynamical model of the Black Sea. Results of these 3D simulations will be presented and compared with maps of in-situ data reconstructed from available data base using the software DIVA (Data Interpolation and Variational analysis).

  19. In vivo MRI-Based 3D FSI RV/LV Models for Human Right Ventricle and Patch Design for Potential Computer-Aided Surgery Optimization.

    PubMed

    Yang, Chun; Tang, Dalin; Haber, Idith; Geva, Tal; Del Nido, Pedro J

    2007-01-01

    Right ventricular dysfunction is one of the more common causes of heart failure in patients with congenital heart defects. Use of computer-assisted procedures is becoming more popular in clinical decision making process and computer-aided surgeries. A 3D in vivo MRI-based RV/LV combination model with fluid-structure interaction (FSI), RV-LV interaction, and RV-patch interaction was introduced to perform mechanical analysis for human right ventricle with potential clinical applications. Patient-specific RV/LV morphologies were acquired by using planar tagged MRI. The 3D RV/LV FSI model was solved using a commercial finite element package ADINA. Our results indicated that flow and stress/strain distributions in the right ventricle are closely related to RV morphology, material properties and blood pressure conditions. Patches with material properties better matching RV tissue properties and smaller size lead to better RV function recoveries. Computational RV volumes showed very good agreement with MRI data (error < 3%). More patient studies are needed to establish baseline database so that computational simulations can be used to replace empirical and often risky clinical experimentation to examine the efficiency and suitability of various reconstructive procedures in diseased hearts and optimal design can be found.

  20. Effective 3-D surface modeling for geographic information systems

    NASA Astrophysics Data System (ADS)

    Yüksek, K.; Alparslan, M.; Mendi, E.

    2016-01-01

    In this work, we propose a dynamic, flexible and interactive urban digital terrain platform with spatial data and query processing capabilities of geographic information systems, multimedia database functionality and graphical modeling infrastructure. A new data element, called Geo-Node, which stores image, spatial data and 3-D CAD objects is developed using an efficient data structure. The system effectively handles data transfer of Geo-Nodes between main memory and secondary storage with an optimized directional replacement policy (DRP) based buffer management scheme. Polyhedron structures are used in digital surface modeling and smoothing process is performed by interpolation. The experimental results show that our framework achieves high performance and works effectively with urban scenes independent from the amount of spatial data and image size. The proposed platform may contribute to the development of various applications such as Web GIS systems based on 3-D graphics standards (e.g., X3-D and VRML) and services which integrate multi-dimensional spatial information and satellite/aerial imagery.

  1. A GPU-based framework for modeling real-time 3D lung tumor conformal dosimetry with subject-specific lung tumor motion

    NASA Astrophysics Data System (ADS)

    Min, Yugang; Santhanam, Anand; Neelakkantan, Harini; Ruddy, Bari H.; Meeks, Sanford L.; Kupelian, Patrick A.

    2010-09-01

    In this paper, we present a graphics processing unit (GPU)-based simulation framework to calculate the delivered dose to a 3D moving lung tumor and its surrounding normal tissues, which are undergoing subject-specific lung deformations. The GPU-based simulation framework models the motion of the 3D volumetric lung tumor and its surrounding tissues, simulates the dose delivery using the dose extracted from a treatment plan using Pinnacle Treatment Planning System, Phillips, for one of the 3DCTs of the 4DCT and predicts the amount and location of radiation doses deposited inside the lung. The 4DCT lung datasets were registered with each other using a modified optical flow algorithm. The motion of the tumor and the motion of the surrounding tissues were simulated by measuring the changes in lung volume during the radiotherapy treatment using spirometry. The real-time dose delivered to the tumor for each beam is generated by summing the dose delivered to the target volume at each increase in lung volume during the beam delivery time period. The simulation results showed the real-time capability of the framework at 20 discrete tumor motion steps per breath, which is higher than the number of 4DCT steps (approximately 12) reconstructed during multiple breathing cycles.

  2. Fringe projection 3D microscopy with the general imaging model.

    PubMed

    Yin, Yongkai; Wang, Meng; Gao, Bruce Z; Liu, Xiaoli; Peng, Xiang

    2015-03-01

    Three-dimensional (3D) imaging and metrology of microstructures is a critical task for the design, fabrication, and inspection of microelements. Newly developed fringe projection 3D microscopy is presented in this paper. The system is configured according to camera-projector layout and long working distance lenses. The Scheimpflug principle is employed to make full use of the limited depth of field. For such a specific system, the general imaging model is introduced to reach a full 3D reconstruction. A dedicated calibration procedure is developed to realize quantitative 3D imaging. Experiments with a prototype demonstrate the accessibility of the proposed configuration, model, and calibration approach.

  3. CityGML - Interoperable semantic 3D city models

    NASA Astrophysics Data System (ADS)

    Gröger, Gerhard; Plümer, Lutz

    2012-07-01

    CityGML is the international standard of the Open Geospatial Consortium (OGC) for the representation and exchange of 3D city models. It defines the three-dimensional geometry, topology, semantics and appearance of the most relevant topographic objects in urban or regional contexts. These definitions are provided in different, well-defined Levels-of-Detail (multiresolution model). The focus of CityGML is on the semantical aspects of 3D city models, its structures, taxonomies and aggregations, allowing users to employ virtual 3D city models for advanced analysis and visualization tasks in a variety of application domains such as urban planning, indoor/outdoor pedestrian navigation, environmental simulations, cultural heritage, or facility management. This is in contrast to purely geometrical/graphical models such as KML, VRML, or X3D, which do not provide sufficient semantics. CityGML is based on the Geography Markup Language (GML), which provides a standardized geometry model. Due to this model and its well-defined semantics and structures, CityGML facilitates interoperable data exchange in the context of geo web services and spatial data infrastructures. Since its standardization in 2008, CityGML has become used on a worldwide scale: tools from notable companies in the geospatial field provide CityGML interfaces. Many applications and projects use this standard. CityGML is also having a strong impact on science: numerous approaches use CityGML, particularly its semantics, for disaster management, emergency responses, or energy-related applications as well as for visualizations, or they contribute to CityGML, improving its consistency and validity, or use CityGML, particularly its different Levels-of-Detail, as a source or target for generalizations. This paper gives an overview of CityGML, its underlying concepts, its Levels-of-Detail, how to extend it, its applications, its likely future development, and the role it plays in scientific research. Furthermore, its

  4. In Vitro Model for Hepatotoxicity Studies Based on Primary Human Hepatocyte Cultivation in a Perfused 3D Bioreactor System

    PubMed Central

    Knöspel, Fanny; Jacobs, Frank; Freyer, Nora; Damm, Georg; De Bondt, An; van den Wyngaert, Ilse; Snoeys, Jan; Monshouwer, Mario; Richter, Marco; Strahl, Nadja; Seehofer, Daniel; Zeilinger, Katrin

    2016-01-01

    Accurate prediction of the potential hepatotoxic nature of new pharmaceuticals remains highly challenging. Therefore, novel in vitro models with improved external validity are needed to investigate hepatic metabolism and timely identify any toxicity of drugs in humans. In this study, we examined the effects of diclofenac, as a model substance with a known risk of hepatotoxicity in vivo, in a dynamic multi-compartment bioreactor using primary human liver cells. Biotransformation pathways of the drug and possible effects on metabolic activities, morphology and cell transcriptome were evaluated. Formation rates of diclofenac metabolites were relatively stable over the application period of seven days in bioreactors exposed to 300 µM diclofenac (300 µM bioreactors (300 µM BR)), while in bioreactors exposed to 1000 µM diclofenac (1000 µM BR) metabolite concentrations declined drastically. The biochemical data showed a significant decrease in lactate production and for the higher dose a significant increase in ammonia secretion, indicating a dose-dependent effect of diclofenac application. The microarray analyses performed revealed a stable hepatic phenotype of the cells over time and the observed transcriptional changes were in line with functional readouts of the system. In conclusion, the data highlight the suitability of the bioreactor technology for studying the hepatotoxicity of drugs in vitro. PMID:27092500

  5. Complete 3D model reconstruction from multiple views

    NASA Astrophysics Data System (ADS)

    Lin, Huei-Yung; Subbarao, Murali; Park, Soon-Yong

    2002-02-01

    New algorithms are presented for automatically acquiring the complete 3D model of single and multiple objects using rotational stereo. The object is placed on a rotation stage. Stereo images for several viewing directions are taken by rotating the object by known angles. Partial 3D shapes and the corresponding texture maps are obtained using rotational stereo and shape from focus. First, for each view, shape from focus is used to obtain a rough 3D shape and the corresponding focused image. Then, the rough 3D shape and focused images are used in rotational stereo to obtain a more accurate measurement of 3D shape. The rotation axis is calibrated using three fixed points on a planar object and refined during surface integration. The complete 3D model is reconstructed by integrating partial 3D shapes and the corresponding texture maps of the object from multiple views. New algorithms for range image registration, surface integration and texture mapping are presented. Our method can generate 3D models very fast and preserve the texture of objects. A new prototype vision system named Stonybrook VIsion System 2 (SVIS-2) has been built and used in the experiments. In the experiments, 4 viewing directions at 90-degree intervals are used. SVIS-2 can acquire the 3D model of objects within a 250 mm x 250 mm x 250 mm cubic workspace placed about 750 mm from the camera. Both computational algorithms and experimental results on several objects are presented.

  6. Numerical Simulation of 3D Hydraulic Fracturing Based on an Improved Flow-Stress-Damage Model and a Parallel FEM Technique

    NASA Astrophysics Data System (ADS)

    Li, L. C.; Tang, C. A.; Li, G.; Wang, S. Y.; Liang, Z. Z.; Zhang, Y. B.

    2012-09-01

    The failure mechanism of hydraulic fractures in heterogeneous geological materials is an important topic in mining and petroleum engineering. A three-dimensional (3D) finite element model that considers the coupled effects of seepage, damage, and the stress field is introduced. This model is based on a previously developed two-dimensional (2D) version of the model (RFPA2D-Rock Failure Process Analysis). The RFPA3D-Parallel model is developed using a parallel finite element method with a message-passing interface library. The constitutive law of this model considers strength and stiffness degradation, stress-dependent permeability for the pre-peak stage, and deformation-dependent permeability for the post-peak stage. Using this model, 3D modelling of progressive failure and associated fluid flow in rock are conducted and used to investigate the hydro-mechanical response of rock samples at laboratory scale. The responses investigated are the axial stress-axial strain together with permeability evolution and fracture patterns at various stages of loading. Then, the hydraulic fracturing process inside a rock specimen is numerically simulated. Three coupled processes are considered: (1) mechanical deformation of the solid medium induced by the fluid pressure acting on the fracture surfaces and the rock skeleton, (2) fluid flow within the fracture, and (3) propagation of the fracture. The numerically simulated results show that the fractures from a vertical wellbore propagate in the maximum principal stress direction without branching, turning, and twisting in the case of a large difference in the magnitude of the far-field stresses. Otherwise, the fracture initiates in a non-preferred direction and plane then turns and twists during propagation to become aligned with the preferred direction and plane. This pattern of fracturing is common when the rock formation contains multiple layers with different material properties. In addition, local heterogeneity of the rock

  7. An Automatic Registration Algorithm for 3D Maxillofacial Model

    NASA Astrophysics Data System (ADS)

    Qiu, Luwen; Zhou, Zhongwei; Guo, Jixiang; Lv, Jiancheng

    2016-09-01

    3D image registration aims at aligning two 3D data sets in a common coordinate system, which has been widely used in computer vision, pattern recognition and computer assisted surgery. One challenging problem in 3D registration is that point-wise correspondences between two point sets are often unknown apriori. In this work, we develop an automatic algorithm for 3D maxillofacial models registration including facial surface model and skull model. Our proposed registration algorithm can achieve a good alignment result between partial and whole maxillofacial model in spite of ambiguous matching, which has a potential application in the oral and maxillofacial reparative and reconstructive surgery. The proposed algorithm includes three steps: (1) 3D-SIFT features extraction and FPFH descriptors construction; (2) feature matching using SAC-IA; (3) coarse rigid alignment and refinement by ICP. Experiments on facial surfaces and mandible skull models demonstrate the efficiency and robustness of our algorithm.

  8. 3D range scan enhancement using image-based methods

    NASA Astrophysics Data System (ADS)

    Herbort, Steffen; Gerken, Britta; Schugk, Daniel; Wöhler, Christian

    2013-10-01

    This paper addresses the problem of 3D surface scan refinement, which is desirable due to noise, outliers, and missing measurements being present in the 3D surfaces obtained with a laser scanner. We present a novel algorithm for the fusion of absolute laser scanner depth profiles and photometrically estimated surface normal data, which yields a noise-reduced and highly detailed depth profile with large scale shape robustness. In contrast to other approaches published in the literature, the presented algorithm (1) regards non-Lambertian surfaces, (2) simultaneously computes surface reflectance (i.e. BRDF) parameters required for 3D reconstruction, (3) models pixelwise incident light and viewing directions, and (4) accounts for interreflections. The algorithm as such relies on the minimization of a three-component error term, which penalizes intensity deviations, integrability deviations, and deviations from the known large-scale surface shape. The solution of the error minimization is obtained iteratively based on a calculus of variations. BRDF parameters are estimated by initially reducing and then iteratively refining the optical resolution, which provides the required robust data basis. The 3D reconstruction of concave surface regions affected by interreflections is improved by compensating global illumination in the image data. The algorithm is evaluated based on eight objects with varying albedos and reflectance behaviors (diffuse, specular, metallic). The qualitative evaluation shows a removal of outliers and a strong reduction of noise, while the large scale shape is preserved. Fine surface details Which are previously not contained in the surface scans, are incorporated through using image data. The algorithm is evaluated with respect to its absolute accuracy using two caliper objects of known shape, and based on synthetically generated data. The beneficial effect of interreflection compensation on the reconstruction accuracy is evaluated quantitatively in a

  9. Extending 3D city models with legal information

    NASA Astrophysics Data System (ADS)

    Frank, A. U.; Fuhrmann, T.; Navratil, G.

    2012-10-01

    3D city models represent existing physical objects and their topological and functional relations. In everyday life the rights and responsibilities connected to these objects, primarily legally defined rights and obligations but also other socially and culturally established rights, are of importance. The rights and obligations are defined in various laws and it is often difficult to identify the rules applicable for a certain case. The existing 2D cadastres show civil law rights and obligations and plans to extend them to provide information about public law restrictions for land use are in several countries under way. It is tempting to design extensions to the 3D city models to provide information about legal rights in 3D. The paper analyses the different types of information that are needed to reduce conflicts and to facilitate decisions about land use. We identify the role 3D city models augmented with planning information in 3D can play, but do not advocate a general conversion from 2D to 3D for the legal cadastre. Space is not anisotropic and the up/down dimension is practically very different from the two dimensional plane - this difference must be respected when designing spatial information systems. The conclusions are: (1) continue the current regime for ownership of apartments, which is not ownership of a 3D volume, but co-ownership of a building with exclusive use of some rooms; such exclusive use rights could be shown in a 3D city model; (2) ownership of 3D volumes for complex and unusual building situations can be reported in a 3D city model, but are not required everywhere; (3) indicate restrictions for land use and building in 3D city models, with links to the legal sources.

  10. 3D-Modeling of deformed halite hopper crystals: Object based image analysis and support vector machine, a first evaluation

    NASA Astrophysics Data System (ADS)

    Leitner, Christoph; Hofmann, Peter; Marschallinger, Robert

    2014-05-01

    Halite hopper crystals are thought to develop by displacive growth in unconsolidated mud (Gornitz & Schreiber, 1984). The Alpine Haselgebirge, but also e.g. the salt deposits of the Rhine graben (mined at the beginning of the 20th century), comprise hopper crystals with shapes of cuboids, parallelepipeds and rhombohedrons (Görgey, 1912). Obviously, they deformed under oriented stress, which had been tried to reconstruct with respect to the sedimentary layering (Leitner et al., 2013). In the present work, deformed halite hopper crystals embedded in mudrock were automated reconstructed. Object based image analysis (OBIA) has been used successfully in remote sensing for 2D images before. The present study represents the first time that the method was used for reconstruction of three dimensional geological objects. First, manually a reference (gold standard) was created by redrawing contours of the halite crystals on each HRXCT scanning slice. Then, for OBIA, the computer program eCognition was used. For the automated reconstruction a rule set was developed. Thereby, the strength of OBIA was to recognize all objects similar to halite hopper crystals and in particular to eliminate cracks. In a second step, all the objects unsuitable for a structural deformation analysis were dismissed using a support vector machine (SVM) (clusters, polyhalite-coated crystals and spherical halites) The SVM simultaneously drastically reduced the number of halites. From 184 OBIA-objects 67 well shaped remained, which comes close to the number of pre-selected 52 objects. To assess the accuracy of the automated reconstruction, the result before and after SVM was compared to the reference, i.e. the gold standard. State-of the art per-scene statistics were extended to a per-object statistics. Görgey R (1912) Zur Kenntnis der Kalisalzlager von Wittelsheim im Ober-Elsaß. Tschermaks Mineral Petrogr Mitt 31:339-468 Gornitz VM, Schreiber BC (1981) Displacive halite hoppers from the dead sea

  11. Right approach to 3D modeling using CAD tools

    NASA Astrophysics Data System (ADS)

    Baddam, Mounica Reddy

    The thesis provides a step-by-step methodology to enable an instructor dealing with CAD tools to optimally guide his/her students through an understandable 3D modeling approach which will not only enhance their knowledge about the tool's usage but also enable them to achieve their desired result in comparatively lesser time. In the known practical field, there is particularly very little information available to apply CAD skills to formal beginners' training sessions. Additionally, advent of new software in 3D domain cumulates updating into a more difficult task. Keeping up to the industry's advanced requirements emphasizes the importance of more skilled hands in the field of CAD development, rather than just prioritizing manufacturing in terms of complex software features. The thesis analyses different 3D modeling approaches specified to the varieties of CAD tools currently available in the market. Utilizing performance-time databases, learning curves have been generated to measure their performance time, feature count etc. Based on the results, improvement parameters have also been provided for (Asperl, 2005).

  12. 3-D or median map? Earthquake scenario ground-motion maps from physics-based models versus maps from ground-motion prediction equations

    NASA Astrophysics Data System (ADS)

    Porter, K.

    2015-12-01

    There are two common ways to create a ground-motion map for a hypothetical earthquake: using ground motion prediction equations (by far the more common of the two) and using 3-D physics-based modeling. The former is very familiar to engineers, the latter much less so, and the difference can present a problem because engineers tend to trust the familiar and distrust novelty. Maps for essentially the same hypothetical earthquake using the two different methods can look very different, while appearing to present the same information. Using one or the other can lead an engineer or disaster planner to very different estimates of damage and risk. The reasons have to do with depiction of variability, spatial correlation of shaking, the skewed distribution of real-world shaking, and the upward-curving relationship between shaking and damage. The scientists who develop the two kinds of map tend to specialize in one or the other and seem to defend their turf, which can aggravate the problem of clearly communicating with engineers.The USGS Science Application for Risk Reduction's (SAFRR) HayWired scenario has addressed the challenge of explaining to engineers the differences between the two maps, and why, in a disaster planning scenario, one might want to use the less-familiar 3-D map.

  13. RELAP5-3D Compressor Model

    SciTech Connect

    James E. Fisher; Cliff B. Davis; Walter L. Weaver

    2005-06-01

    A compressor model has been implemented in the RELAP5-3D© code. The model is similar to that of the existing pump model, and performs the same function on a gas as the pump performs on a single-phase or two-phase fluid. The compressor component consists of an inlet junction and a control volume, and optionally, an outlet junction. This feature permits cascading compressor components in series. The equations describing the physics of the compressor are derived from first principles. These equations are used to obtain the head, the torque, and the energy dissipation. Compressor performance is specified using a map, specific to the design of the machine, in terms of the ratio of outlet-to-inlet total (or stagnation) pressure and adiabatic efficiency as functions of rotational velocity and flow rate. The input quantities are specified in terms of dimensionless variables, which are corrected to stagnation density and stagnation sound speed. A small correction was formulated for the input of efficiency to account for the error introduced by assumption of constant density when integrating the momentum equation. Comparison of the results of steady-state operation of the compressor model to those of the MIT design calculation showed excellent agreement for both pressure ratio and power.

  14. A 3D model of Pluto's atmosphere

    NASA Astrophysics Data System (ADS)

    Vangvichith, M.; Forget, F.; Wordsworth, R.

    2011-10-01

    For the first time, we have built a GCM of Pluto's atmosphere, adapted from the model of Triton's, recently developed[9] . In fact, Pluto and Triton have a lot of similarities (atmospheric, orbital). This GCM will allow to better understand the complex mechanism of the planet and to study the variation of the thermal profile during time.

  15. Beyond 3D culture models of cancer

    PubMed Central

    Tanner, Kandice; Gottesman, Michael M.

    2016-01-01

    The mechanisms underlying the spatiotemporal evolution of tumor ecosystems present a challenge in evaluating drug efficacy. In this Perspective, we address the use of three-dimensional in vitro culture models to delineate the dynamic interplay between the tumor and the host microenvironment in an effort to attain realistic platforms for assessing pharmaceutical efficacy in patients. PMID:25877888

  16. Venusian Applications of 3D Convection Modeling

    NASA Technical Reports Server (NTRS)

    Bonaccorso, Timary Annie

    2011-01-01

    This study models mantle convection on Venus using the 'cubed sphere' code OEDIPUS, which models one-sixth of the planet in spherical geometry. We are attempting to balance internal heating, bottom mantle viscosity, and temperature difference across Venus' mantle, in order to create a realistic model that matches with current planetary observations. We also have begun to run both lower and upper mantle simulations to determine whether layered (as opposed to whole-mantle) convection might produce more efficient heat transfer, as well as to model coronae formation in the upper mantle. Upper mantle simulations are completed using OEDIPUS' Cartesian counterpart, JOCASTA. This summer's central question has been how to define a mantle plume. Traditionally, we have defined a hot plume the region with temperature at or above 40% of the difference between the maximum and horizontally averaged temperature, and a cold plume as the region with 40% of the difference between the minimum and average temperature. For less viscous cases (1020 Pa?s), the plumes generated by that definition lacked vigor, displaying buoyancies 1/100th of those found in previous, higher viscosity simulations (1021 Pa?s). As the mantle plumes with large buoyancy flux are most likely to produce topographic uplift and volcanism, the low viscosity cases' plumes may not produce observable deformation. In an effort to eliminate the smallest plumes, we experimented with different lower bound parameters and temperature percentages.

  17. Automatic Assessment of 3D Modeling Exams

    ERIC Educational Resources Information Center

    Sanna, A.; Lamberti, F.; Paravati, G.; Demartini, C.

    2012-01-01

    Computer-based assessment of exams provides teachers and students with two main benefits: fairness and effectiveness in the evaluation process. This paper proposes a fully automatic evaluation tool for the Graphic and Virtual Design (GVD) curriculum at the First School of Architecture of the Politecnico di Torino, Italy. In particular, the tool is…

  18. 3D Wavelet-Based Filter and Method

    DOEpatents

    Moss, William C.; Haase, Sebastian; Sedat, John W.

    2008-08-12

    A 3D wavelet-based filter for visualizing and locating structural features of a user-specified linear size in 2D or 3D image data. The only input parameter is a characteristic linear size of the feature of interest, and the filter output contains only those regions that are correlated with the characteristic size, thus denoising the image.

  19. Modelling Polymer Deformation during 3D Printing

    NASA Astrophysics Data System (ADS)

    McIlroy, Claire; Olmsted, Peter

    Three-dimensional printing has the potential to transform manufacturing processes, yet improving the strength of printed parts, to equal that of traditionally-manufactured parts, remains an underlying issue. The fused deposition modelling technique involves melting a thermoplastic, followed by layer-by-layer extrusion to fabricate an object. The key to ensuring strength at the weld between layers is successful inter-diffusion. However, prior to welding, both the extrusion process and the cooling temperature profile can significantly deform the polymer micro-structure and, consequently, how well the polymers are able to ``re-entangle'' across the weld. In particular, polymer alignment in the flow can cause de-bonding of the layers and create defects. We have developed a simple model of the non-isothermal extrusion process to explore the effects that typical printing conditions and material rheology have on the conformation of a polymer melt. In particular, we incorporate both stretch and orientation using the Rolie-Poly constitutive equation to examine the melt structure as it flows through the nozzle, the subsequent alignment with the build plate and the resulting deformation due to the fixed nozzle height, which is typically less than the nozzle radius.

  20. Geodesy-based estimates of loading rates on faults beneath the Los Angeles basin with a new, computationally efficient method to model dislocations in 3D heterogeneous media

    NASA Astrophysics Data System (ADS)

    Rollins, C.; Argus, D. F.; Avouac, J. P.; Landry, W.; Barbot, S.

    2015-12-01

    North-south compression across the Los Angeles basin is accommodated by slip on thrust faults beneath the basin that may present significant seismic hazard to Los Angeles. Previous geodesy-based efforts to constrain the distributions and rates of elastic strain accumulation on these faults [Argus et al 2005, 2012] have found that the elastic model used has a first-order impact on the inferred distribution of locking and creep, underlining the need to accurately incorporate the laterally heterogeneous elastic structure and complex fault geometries of the Los Angeles basin into this analysis. We are using Gamra [Landry and Barbot, in prep.], a newly developed adaptive-meshing finite-difference solver, to compute elastostatic Green's functions that incorporate the full 3D regional elastic structure provided by the SCEC Community Velocity Model. Among preliminary results from benchmarks, forward models and inversions, we find that: 1) for a modeled creep source on the edge dislocation geometry from Argus et al [2005], the use of the SCEC CVM material model produces surface velocities in the hanging wall that are up to ~50% faster than those predicted in an elastic halfspace model; 2) in sensitivity-modulated inversions of the Argus et al [2005] GPS velocity field for slip on the same dislocation source, the use of the CVM deepens the inferred locking depth by ≥3 km compared to an elastic halfspace model; 3) when using finite-difference or finite-element models with Dirichlet boundary conditions (except for the free surface) for problems of this scale, it is necessary to set the boundaries at least ~100 km away from any slip source or data point to guarantee convergence within 5% of analytical solutions (a result which may be applicable to other static dislocation modeling problems and which may scale with the size of the area of interest). Here we will present finalized results from inversions of an updated GPS velocity field [Argus et al, AGU 2015] for the inferred

  1. Transforming 2d Cadastral Data Into a Dynamic Smart 3d Model

    NASA Astrophysics Data System (ADS)

    Tsiliakou, E.; Labropoulos, T.; Dimopoulou, E.

    2013-08-01

    3D property registration has become an imperative need in order to optimally reflect all complex cases of the multilayer reality of property rights and restrictions, revealing their vertical component. This paper refers to the potentials and multiple applications of 3D cadastral systems and explores the current state-of-the art, especially the available software with which 3D visualization can be achieved. Within this context, the Hellenic Cadastre's current state is investigated, in particular its data modeling frame. Presenting the methodologies and specifications addressing the registration of 3D properties, the operating cadastral system's shortcomings and merits are pointed out. Nonetheless, current technological advances as well as the availability of sophisticated software packages (proprietary or open source) call for 3D modeling. In order to register and visualize the complex reality in 3D, Esri's CityEngine modeling software has been used, which is specialized in the generation of 3D urban environments, transforming 2D GIS Data into Smart 3D City Models. The application of the 3D model concerns the Campus of the National Technical University of Athens, in which a complex ownership status is established along with approved special zoning regulations. The 3D model was built using different parameters based on input data, derived from cadastral and urban planning datasets, as well as legal documents and architectural plans. The process resulted in a final 3D model, optimally describing the cadastral situation and built environment and proved to be a good practice example of 3D visualization.

  2. A novel alternative method for 3D visualisation in Parasitology: the construction of a 3D model of a parasite from 2D illustrations.

    PubMed

    Teo, B G; Sarinder, K K S; Lim, L H S

    2010-08-01

    Three-dimensional (3D) models of the marginal hooks, dorsal and ventral anchors, bars and haptoral reservoirs of a parasite, Sundatrema langkawiense Lim & Gibson, 2009 (Monogenea) were developed using the polygonal modelling method in Autodesk 3ds Max (Version 9) based on two-dimensional (2D) illustrations. Maxscripts were written to rotate the modelled 3D structures. Appropriately orientated 3D haptoral hard-parts were then selected and positioned within the transparent 3D outline of the haptor and grouped together to form a complete 3D haptoral entity. This technique is an inexpensive tool for constructing 3D models from 2D illustrations for 3D visualisation of the spatial relationships between the different structural parts within organisms. PMID:20962723

  3. Faceless identification: a model for person identification using the 3D shape and 3D motion as cues

    NASA Astrophysics Data System (ADS)

    Klasen, Lena M.; Li, Haibo

    1999-02-01

    Person identification by using biometric methods based on image sequences, or still images, often requires a controllable and cooperative environment during the image capturing stage. In the forensic case the situation is more likely to be the opposite. In this work we propose a method that makes use of the anthropometry of the human body and human actions as cues for identification. Image sequences from surveillance systems are used, which can be seen as monocular image sequences. A 3D deformable wireframe body model is used as a platform to handle the non-rigid information of the 3D shape and 3D motion of the human body from the image sequence. A recursive method for estimating global motion and local shape variations is presented, using two recursive feedback systems.

  4. Modeling moving systems with RELAP5-3D

    DOE PAGES

    Mesina, G. L.; Aumiller, David L.; Buschman, Francis X.; Kyle, Matt R.

    2015-12-04

    RELAP5-3D is typically used to model stationary, land-based reactors. However, it can also model reactors in other inertial and accelerating frames of reference. By changing the magnitude of the gravitational vector through user input, RELAP5-3D can model reactors on a space station or the moon. The field equations have also been modified to model reactors in a non-inertial frame, such as occur in land-based reactors during earthquakes or onboard spacecraft. Transient body forces affect fluid flow in thermal-fluid machinery aboard accelerating crafts during rotational and translational accelerations. It is useful to express the equations of fluid motion in the acceleratingmore » frame of reference attached to the moving craft. However, careful treatment of the rotational and translational kinematics is required to accurately capture the physics of the fluid motion. Correlations for flow at angles between horizontal and vertical are generated via interpolation where no experimental studies or data exist. The equations for three-dimensional fluid motion in a non-inertial frame of reference are developed. As a result, two different systems for describing rotational motion are presented, user input is discussed, and an example is given.« less

  5. Modeling moving systems with RELAP5-3D

    SciTech Connect

    Mesina, G. L.; Aumiller, David L.; Buschman, Francis X.; Kyle, Matt R.

    2015-12-04

    RELAP5-3D is typically used to model stationary, land-based reactors. However, it can also model reactors in other inertial and accelerating frames of reference. By changing the magnitude of the gravitational vector through user input, RELAP5-3D can model reactors on a space station or the moon. The field equations have also been modified to model reactors in a non-inertial frame, such as occur in land-based reactors during earthquakes or onboard spacecraft. Transient body forces affect fluid flow in thermal-fluid machinery aboard accelerating crafts during rotational and translational accelerations. It is useful to express the equations of fluid motion in the accelerating frame of reference attached to the moving craft. However, careful treatment of the rotational and translational kinematics is required to accurately capture the physics of the fluid motion. Correlations for flow at angles between horizontal and vertical are generated via interpolation where no experimental studies or data exist. The equations for three-dimensional fluid motion in a non-inertial frame of reference are developed. As a result, two different systems for describing rotational motion are presented, user input is discussed, and an example is given.

  6. Analysis of Vertical Dynamics in the Northern Baltic Sea based on 3D Modelling and Data from Shallow-Water Argo Floats

    NASA Astrophysics Data System (ADS)

    Westerlund, Antti; Tuomi, Laura

    2016-04-01

    Vertical mixing is a challenge for ocean models. 3D hydrodynamic models often produce considerable errors in mixed layer depths and vertical temperature structure that can be related to the vertical turbulence parameterisation. These errors can be pronounced in areas with complex hydrography. In the Baltic Sea, for example, there are high horizontal and vertical salinity gradients. Furthermore, thermocline and halocline are located at different depths. This produces stratification conditions challenging for all ocean models. We studied vertical mixing with modelling experiments and new observational data. NEMO 3D ocean model has been set up at Finnish Meteorological Institute (FMI) for the Baltic Sea, based on the NEMO Nordic configuration. The model has been discretized on a Baltic Sea - North Sea grid with 2 nautical mile resolution and 56 vertical layers, using FMI-HIRLAM atmospheric forcing. The observational data for Baltic Sea off-shore areas is sparse and new methods are needed to collect data for model validation and development. FMI has been testing Argo floats in the Baltic Sea since 2011 in order to increase the amount of observed vertical profiles of salinity and temperature. This is the first time Argo floats have been successfully used in the brackish, shallow waters of the Baltic Sea. This new data set is well suited for evaluating the capability of hydrodynamic models to produce the vertical structure of temperature. It provides a time series of profiles from the area of interest with good temporal resolution, showing the structure of temperature in the water column throughout the summer. We found that NEMO was able to reproduce the general features of the seasonal temperature variations in the study area, when meteorological forcing was accurate. We ran the model with different vertical turbulence parameterisations. The k-ɛ and k-ω schemes showed clear differences, but neither proved superior. While sea surface temperature was better simulated

  7. Examination of 1D Solar Cell Model Limitations Using 3D SPICE Modeling: Preprint

    SciTech Connect

    McMahon, W. E.; Olson, J. M.; Geisz, J. F.; Friedman, D. J.

    2012-06-01

    To examine the limitations of one-dimensional (1D) solar cell modeling, 3D SPICE-based modeling is used to examine in detail the validity of the 1D assumptions as a function of sheet resistance for a model cell. The internal voltages and current densities produced by this modeling give additional insight into the differences between the 1D and 3D models.

  8. A common feature-based 3D-pharmacophore model generation and virtual screening: identification of potential PfDHFR inhibitors.

    PubMed

    Adane, Legesse; Bharatam, Prasad V; Sharma, Vikas

    2010-10-01

    A four-feature 3D-pharmacophore model was built from a set of 24 compounds whose activities were reported against the V1/S strain of the Plasmodium falciparum dihydrofolate reductase (PfDHFR) enzyme. This is an enzyme harboring Asn51Ile + Cys59Arg + Ser108Asn + Ile164Leu mutations. The HipHop module of the Catalyst program was used to generate the model. Selection of the best model among the 10 hypotheses generated by HipHop was carried out based on rank and best-fit values or alignments of the training set compounds onto a particular hypothesis. The best model (hypo1) consisted of two H-bond donors, one hydrophobic aromatic, and one hydrophobic aliphatic features. Hypo1 was used as a query to virtually screen Maybridge2004 and NCI2000 databases. The hits obtained from the search were subsequently subjected to FlexX and Glide docking studies. Based on the binding scores and interactions in the active site of quadruple-mutant PfDHFR, a set of nine hits were identified as potential inhibitors. PMID:19995305

  9. A common feature-based 3D-pharmacophore model generation and virtual screening: identification of potential PfDHFR inhibitors.

    PubMed

    Adane, Legesse; Bharatam, Prasad V; Sharma, Vikas

    2010-10-01

    A four-feature 3D-pharmacophore model was built from a set of 24 compounds whose activities were reported against the V1/S strain of the Plasmodium falciparum dihydrofolate reductase (PfDHFR) enzyme. This is an enzyme harboring Asn51Ile + Cys59Arg + Ser108Asn + Ile164Leu mutations. The HipHop module of the Catalyst program was used to generate the model. Selection of the best model among the 10 hypotheses generated by HipHop was carried out based on rank and best-fit values or alignments of the training set compounds onto a particular hypothesis. The best model (hypo1) consisted of two H-bond donors, one hydrophobic aromatic, and one hydrophobic aliphatic features. Hypo1 was used as a query to virtually screen Maybridge2004 and NCI2000 databases. The hits obtained from the search were subsequently subjected to FlexX and Glide docking studies. Based on the binding scores and interactions in the active site of quadruple-mutant PfDHFR, a set of nine hits were identified as potential inhibitors.

  10. Massive sulfide exploration models of the Iberian Pyrite Belt Neves Corvo mine region, based in a 3D geological, geophysical and geochemical ProMine study

    NASA Astrophysics Data System (ADS)

    Inverno, Carlos; Matos, João Xavier; Rosa, Carlos; Mário Castelo-Branco, José; Granado, Isabel; Carvalho, João; João Baptista, Maria; Represas, Patrícia; Pereira, Zélia; Oliveira, Tomás; Araujo, Vitor

    2013-04-01

    The Iberian Pyrite Belt (IPB) hosts one of the largest concentrations of massive sulfides in the Earth's crust. This highly productive VMS belt contains more than 85 massive sulfide deposits, totalling an estimate of 1600 Mt of massive ore and about 250 Mt of stockwork ore (Leistel et al., 1998; Oliveira et al., 2005; Tornos, 2006). Included in the South Portuguese Zone the IPB is represented by the Phyllite-Quartzite Group (PQG) composed of shales and quartzites of late Devonian age followed by the Volcanic-Sedimentary Complex (VSC) a submarine succession of sediments and felsic and basic volcanic rocks (late Famennian-late Viséan age). Above the IPB a turbidite sedimentary unit occurs being represented by the Baixo Alentejo Flysch Group (BAFG). The ore deposits are hosted by felsic volcanic rocks and sediments that are dominant in the lower part of the VSC succession. The Neves Corvo (ProMine, EU FP7) project area is focused on the Neves Corvo deposit, an active copper mine. The project area is located between the Messejana Fault and the Portuguese/Spanish border which has been selected for the 3D geological and geophysical modelling study, based on high exploration potential of the Neves Corvo area (Oliveira et al. 2006, Relvas et al. 2006, Pereira et al. 2008, Rosa et al. 2008, Matos et al. 2011, Oliveira et al. 2013). In this study existing LNEG and AGC geological, geophysical and geochemistry databases were considered. New surveys were done: i) - A physical volcanology and palynostratigraphic age data study and log of the Cotovio drill-hole core (1,888 m, drilled by AGC). ii) - Interpretation of 280 km of Squid TEM performed by AGC. Based on the TEM data, significant conductors have been identified related with: shallow conductive cover, graphitic shale, black shale and sulphide mineralizations. The most important TEM conductors are related with the Neves Corvo massive sulphides lenses (1-10 Ωm). iii) - Ground and residual gravimetry studies including

  11. Testing Mercury Porosimetry with 3D Printed Porosity Models

    NASA Astrophysics Data System (ADS)

    Hasiuk, F.; Ewing, R. P.; Hu, Q.

    2014-12-01

    Mercury intrusion porosimetry is one of the most widely used techniques to study the porous nature of a geological and man-made materials. In the geosciences, it is commonly used to describe petroleum reservoir and seal rocks as well as to grade aggregates for the design of asphalt and portland cement concretes. It's wide utility stems from its ability to characterize a wide range of pore throat sizes (from nanometers to around a millimeter). The fundamental physical model underlying mercury intrusion porosimetry, the Washburn Equation, is based on the assumption that rock porosity can be described as a bundle of cylindrical tubes. 3D printing technology, also known as rapid prototyping, allows the construction of intricate and accurate models, exactly what is required to build models of rock porosity. We evaluate the applicability of the Washburn Equation by comparing properties (like porosity, pore and pore throat size distribution, and surface area) computed on digital porosity models (built from CT data, CAD designs, or periodic geometries) to properties measured via mercury intrusion porosimetry on 3D printed versions of the same digital porosity models.

  12. Development and evaluation of a LOR-based image reconstruction with 3D system response modeling for a PET insert with dual-layer offset crystal design

    NASA Astrophysics Data System (ADS)

    Zhang, Xuezhu; Stortz, Greg; Sossi, Vesna; Thompson, Christopher J.; Retière, Fabrice; Kozlowski, Piotr; Thiessen, Jonathan D.; Goertzen, Andrew L.

    2013-12-01

    In this study we present a method of 3D system response calculation for analytical computer simulation and statistical image reconstruction for a magnetic resonance imaging (MRI) compatible positron emission tomography (PET) insert system that uses a dual-layer offset (DLO) crystal design. The general analytical system response functions (SRFs) for detector geometric and inter-crystal penetration of coincident crystal pairs are derived first. We implemented a 3D ray-tracing algorithm with 4π sampling for calculating the SRFs of coincident pairs of individual DLO crystals. The determination of which detector blocks are intersected by a gamma ray is made by calculating the intersection of the ray with virtual cylinders with radii just inside the inner surface and just outside the outer-edge of each crystal layer of the detector ring. For efficient ray-tracing computation, the detector block and ray to be traced are then rotated so that the crystals are aligned along the X-axis, facilitating calculation of ray/crystal boundary intersection points. This algorithm can be applied to any system geometry using either single-layer (SL) or multi-layer array design with or without offset crystals. For effective data organization, a direct lines of response (LOR)-based indexed histogram-mode method is also presented in this work. SRF calculation is performed on-the-fly in both forward and back projection procedures during each iteration of image reconstruction, with acceleration through use of eight-fold geometric symmetry and multi-threaded parallel computation. To validate the proposed methods, we performed a series of analytical and Monte Carlo computer simulations for different system geometry and detector designs. The full-width-at-half-maximum of the numerical SRFs in both radial and tangential directions are calculated and compared for various system designs. By inspecting the sinograms obtained for different detector geometries, it can be seen that the DLO crystal

  13. Patient-Specific Carotid Plaque Progression Simulation Using 3D Meshless Generalized Finite Difference Models with Fluid-Structure Interactions Based on Serial In Vivo MRI Data.

    PubMed

    Yang, Chun; Tang, Dalin; Atluri, Satya

    2011-01-01

    Previously, we introduced a computational procedure based on three-dimensional meshless generalized finite difference (MGFD) method and serial magnetic resonance imaging (MRI) data to quantify patient-specific carotid atherosclerotic plaque growth functions and simulate plaque progression. Structure-only models were used in our previous report. In this paper, fluid-stricture interaction (FSI) was added to improve on prediction accuracy. One participating patient was scanned three times (T1, T2, and T3, at intervals of about 18 months) to obtain plaque progression data. Blood flow was assumed to laminar, Newtonian, viscous and incompressible. The Navier-Stokes equations with arbitrary Lagrangian-Eulerian (ALE) formulation were used as the governing equations. Plaque material was assumed to be uniform, homogeneous, isotropic, linear, and nearly incompressible. The linear elastic model was used. The 3D FSI plaque model was discretized and solved using a meshless generalized finite difference (GFD) method. Growth functions with a) morphology alone; b) morphology and plaque wall stress (PWS); morphology and flow shear stress (FSS), and d) morphology, PWS and FSS were introduced to predict future plaque growth based on previous time point data. Starting from the T2 plaque geometry, plaque progression was simulated by solving the FSI model and adjusting plaque geometry using plaque growth functions iteratively until T3 is reached. Numerically simulated plaque progression agreed very well with the target T3 plaque geometry with errors ranging from 8.62%, 7.22%, 5.77% and 4.39%, with the growth function including morphology, plaque wall stress and flow shear stress terms giving the best predictions. Adding flow shear stress term to the growth function improved the prediction error from 7.22% to 4.39%, a 40% improvement. We believe this is the first time 3D plaque progression FSI simulation based on multi-year patient-tracking data was reported. Serial MRI-based progression

  14. A study of the variation of physical conditions in the cometary coma based on a 3D multi-fluid model

    NASA Astrophysics Data System (ADS)

    Shou, Y.; Combi, M. R.; Fougere, N.; Tenishev, V.; Toth, G.; Gombosi, T. I.; Huang, Z.; Jia, X.; Bieler, A. M.; Hansen, K. C.

    2015-12-01

    Physics-based numerical coma models are desirable whether to interpret the spacecraft observations of the inner coma or to compare with the ground-based observations of the outer coma. One example is Direct Simulation Monte Carlo (DSMC) method, which has been successfully adopted to simulate the coma under various complex conditions. However, for bright comets with large production rates, the time step in DSMC model has to be tiny to accommodate the small mean free path and the high collision frequency. In addition a truly time-variable 3D DSMC model would still be computationally difficult or even impossible under most circumstances. In this work, we develop a multi-neutral-fluid model based on BATS-R-US in the University of Michigan's SWMF (Space Weather Modeling Framework), which can serve as a useful alternative to DSMC methods to compute both the inner and the outer coma and to treat time-variable phenomena. This model treats H2O, OH, H2, O, H and CO2 as separate fluids and each fluid has its own velocity and temperature. But collisional interactions can also couple all fluids together. Collisional interactions tend to decrease the velocity differences and are also able to re-distribute the excess energy deposited by chemical reactions among all species. To compute the momentum and energy transfer caused by such interactions self-consistently, collisions between fluids, whose efficiency is proportional to the densities, are included as well as heating from various chemical reactions. By applying the model to comets with different production rates (i.e. 67P/Churyumov-Gerasimenko, 1P/Halley, etc.), we are able to study how the heating efficiency varies with cometocentric distances and production rates. The preliminary results and comparison are presented and discussed. This work has been partially supported by grant NNX14AG84G from the NASA Planetary Atmospheres Program, and US Rosetta contracts JPL #1266313, JPL #1266314 and JPL #1286489.

  15. Computational integral-imaging reconstruction-based 3-D volumetric target object recognition by using a 3-D reference object.

    PubMed

    Kim, Seung-Cheol; Park, Seok-Chan; Kim, Eun-Soo

    2009-12-01

    In this paper, we propose a novel computational integral-imaging reconstruction (CIIR)-based three-dimensional (3-D) image correlator system for the recognition of 3-D volumetric objects by employing a 3-D reference object. That is, a number of plane object images (POIs) computationally reconstructed from the 3-D reference object are used for the 3-D volumetric target recognition. In other words, simultaneous 3-D image correlations between two sets of target and reference POIs, which are depth-dependently reconstructed by using the CIIR method, are performed for effective recognition of 3-D volumetric objects in the proposed system. Successful experiments with this CIIR-based 3-D image correlator confirmed the feasibility of the proposed method.

  16. Brandenburg 3D - a comprehensive 3D Subsurface Model, Conception of an Infrastructure Node and a Web Application

    NASA Astrophysics Data System (ADS)

    Kerschke, Dorit; Schilling, Maik; Simon, Andreas; Wächter, Joachim

    2014-05-01

    The Energiewende and the increasing scarcity of raw materials will lead to an intensified utilization of the subsurface in Germany. Within this context, geological 3D modeling is a fundamental approach for integrated decision and planning processes. Initiated by the development of the European Geospatial Infrastructure INSPIRE, the German State Geological Offices started digitizing their predominantly analog archive inventory. Until now, a comprehensive 3D subsurface model of Brandenburg did not exist. Therefore the project B3D strived to develop a new 3D model as well as a subsequent infrastructure node to integrate all geological and spatial data within the Geodaten-Infrastruktur Brandenburg (Geospatial Infrastructure, GDI-BB) and provide it to the public through an interactive 2D/3D web application. The functionality of the web application is based on a client-server architecture. Server-sided, all available spatial data is published through GeoServer. GeoServer is designed for interoperability and acts as the reference implementation of the Open Geospatial Consortium (OGC) Web Feature Service (WFS) standard that provides the interface that allows requests for geographical features. In addition, GeoServer implements, among others, the high performance certified compliant Web Map Service (WMS) that serves geo-referenced map images. For publishing 3D data, the OGC Web 3D Service (W3DS), a portrayal service for three-dimensional geo-data, is used. The W3DS displays elements representing the geometry, appearance, and behavior of geographic objects. On the client side, the web application is solely based on Free and Open Source Software and leans on the JavaScript API WebGL that allows the interactive rendering of 2D and 3D graphics by means of GPU accelerated usage of physics and image processing as part of the web page canvas without the use of plug-ins. WebGL is supported by most web browsers (e.g., Google Chrome, Mozilla Firefox, Safari, and Opera). The web

  17. cyp51A-based mechanism of azole resistance in Aspergillus fumigatus: Illustration by a new 3D Structural Model of Aspergillus fumigatus CYP51A protein.

    PubMed

    Liu, Musang; Zheng, Nan; Li, Dongmei; Zheng, Hailin; Zhang, Lili; Ge, Hu; Liu, Weida

    2016-05-01

    Mutations of CYP51A protein (Cytochrome P450 14-α Sterol demethylase) play a central role in the azole resistance of Aspergillus fumigatus The available structural models of CYP51A protein ofA. fumigatus are built based on that of Homo sapiens and that of Mycobacterium tuberculosis, of which the amino acid homology is only 38% and 29% compared with CYP51A protein ofA. fumigatus, respectively. In the present study, we constructed a new 3D structural model ofA. fumigatus CYP51A protein based on a recently resolved crystal structure of the homologous protein in the fungus S. cerevisiae, which shares 50% amino acid homology with A. fumigatus CYP51A protein. Three azole molecules, itraconazole, voriconazole, and posaconazole, were docked to the wild-type and the mutant A. fumigatus CYP51A protein models, respectively, to illustrate the impact of cyp51A mutations to azole-resistance. We found the mutations that occurred at L98, M220, and Y431 positions would decrease the binding affinity of azoles to the CYP51A protein and therefore would reduce their inhibitory effects. Additionally, the mutations of L98 and G432 would reduce the stability of the protein, which might lead to conformational change of its binding pocket and eventually the resistance to azoles.

  18. Effect of Clouds on Optical Imaging of the Space Shuttle During the Ascent Phase: A Statistical Analysis Based on a 3D Model

    NASA Technical Reports Server (NTRS)

    Short, David A.; Lane, Robert E., Jr.; Winters, Katherine A.; Madura, John T.

    2004-01-01

    Clouds are highly effective in obscuring optical images of the Space Shuttle taken during its ascent by ground-based and airborne tracking cameras. Because the imagery is used for quick-look and post-flight engineering analysis, the Columbia Accident Investigation Board (CAIB) recommended the return-to-flight effort include an upgrade of the imaging system to enable it to obtain at least three useful views of the Shuttle from lift-off to at least solid rocket booster (SRB) separation (NASA 2003). The lifetimes of individual cloud elements capable of obscuring optical views of the Shuttle are typically 20 minutes or less. Therefore, accurately observing and forecasting cloud obscuration over an extended network of cameras poses an unprecedented challenge for the current state of observational and modeling techniques. In addition, even the best numerical simulations based on real observations will never reach "truth." In order to quantify the risk that clouds would obscure optical imagery of the Shuttle, a 3D model to calculate probabilistic risk was developed. The model was used to estimate the ability of a network of optical imaging cameras to obtain at least N simultaneous views of the Shuttle from lift-off to SRB separation in the presence of an idealized, randomized cloud field.

  19. Recognition technology research based on 3D fingerprint

    NASA Astrophysics Data System (ADS)

    Tian, Qianxiao; Huang, Shujun; Zhang, Zonghua

    2014-11-01

    Fingerprint has been widely studied and applied to personal recognition in both forensics and civilian. However, the current widespread used fingerprint is identified by 2D (two-dimensional) fingerprint image and the mapping from 3D (three-dimensional) to 2D loses 1D information, which leads to low accurate and even wrong recognition. This paper presents a 3D fingerprint recognition method based on the fringe projection technique. A series of fringe patterns generated by software are projected onto a finger surface through a projecting system. From another viewpoint, the fringe patterns are deformed by the finger surface and captured by a CCD camera. The deformed fringe pattern images give the 3D shape data of the finger and the 3D fingerprint features. Through converting the 3D fingerprints to 2D space, traditional 2D fingerprint recognition method can be used to 3D fingerprints recognition. Experimental results on measuring and recognizing some 3D fingerprints show the accuracy and availability of the developed 3D fingerprint system.

  20. Summary on Several Key Techniques in 3D Geological Modeling

    PubMed Central

    2014-01-01

    Several key techniques in 3D geological modeling including planar mesh generation, spatial interpolation, and surface intersection are summarized in this paper. Note that these techniques are generic and widely used in various applications but play a key role in 3D geological modeling. There are two essential procedures in 3D geological modeling: the first is the simulation of geological interfaces using geometric surfaces and the second is the building of geological objects by means of various geometric computations such as the intersection of surfaces. Discrete geometric surfaces that represent geological interfaces can be generated by creating planar meshes first and then spatially interpolating; those surfaces intersect and then form volumes that represent three-dimensional geological objects such as rock bodies. In this paper, the most commonly used algorithms of the key techniques in 3D geological modeling are summarized. PMID:24772029

  1. Geographic Video 3d Data Model And Retrieval

    NASA Astrophysics Data System (ADS)

    Han, Z.; Cui, C.; Kong, Y.; Wu, H.

    2014-04-01

    Geographic video includes both spatial and temporal geographic features acquired through ground-based or non-ground-based cameras. With the popularity of video capture devices such as smartphones, the volume of user-generated geographic video clips has grown significantly and the trend of this growth is quickly accelerating. Such a massive and increasing volume poses a major challenge to efficient video management and query. Most of the today's video management and query techniques are based on signal level content extraction. They are not able to fully utilize the geographic information of the videos. This paper aimed to introduce a geographic video 3D data model based on spatial information. The main idea of the model is to utilize the location, trajectory and azimuth information acquired by sensors such as GPS receivers and 3D electronic compasses in conjunction with video contents. The raw spatial information is synthesized to point, line, polygon and solid according to the camcorder parameters such as focal length and angle of view. With the video segment and video frame, we defined the three categories geometry object using the geometry model of OGC Simple Features Specification for SQL. We can query video through computing the spatial relation between query objects and three categories geometry object such as VFLocation, VSTrajectory, VSFOView and VFFovCone etc. We designed the query methods using the structured query language (SQL) in detail. The experiment indicate that the model is a multiple objective, integration, loosely coupled, flexible and extensible data model for the management of geographic stereo video.

  2. High Resolution 3d Numerical Modelling of Rockfalls

    NASA Astrophysics Data System (ADS)

    Agliardi, F.; Crosta, G. B.

    Accurate modelling of rockfall dynamics is a major issue for engineering geologists and land planners in rockfall prone areas, both for hazard assessment and the design of countermeasures. Numerical modelling of rockfalls has been generally performed in two dimensions. Thus, this is subjected to the crucial "a priori" choice of the rock- fall path and affected by a significant error due to the lateral dispersion of rockfall trajectories. In this study, an original 3D rockfall simulation program, first developed for regional scale distributed analysis, has been tested at a local scale with a very high spatial resolution, in order to show its performance in modelling site-specific prob- lems (runout definition, hazard assessment, design and verification of barriers). The code is based on a "lumped mass" kinematic algorithm allowing to simulate the free fall, impact-rebound and rolling motion of boulders on a three-dimensional topogra- phy described by a DTM. The code allows to run very detailed 3D simulations with almost no limitations in the number of modeled rockfall sources, slope elements and topographic points, using spatially distributed input data. Two case studies from the Mt. S.Martino area (Lecco, Larian Prealps) and the Gembrasca area (Valfurva, Central Alps), both from the mountainous area of the Lombardia Region (Northern Italy) are presented. Both the two examples are particularly intriguing because of the occurrence of well-known historical events (one of which causing fatalities) and the presence of valuable elements at risk (urban areas, transportation corridors) and defensive mea- sures (elasto-plastic barriers and catch walls). The Mt. S.Martino model is based on a DTM with cell size of 5 m, obtained from a 1:5.000 scale contour map, while the Gembrasca one uses an extremely detailed LIDAR-ALTM laser topography with a cell size of 1 m. The location of rockfall sources and the data used to develop and calibrate the two models have been collected

  3. 3D face recognition based on matching of facial surfaces

    NASA Astrophysics Data System (ADS)

    Echeagaray-Patrón, Beatriz A.; Kober, Vitaly

    2015-09-01

    Face recognition is an important task in pattern recognition and computer vision. In this work a method for 3D face recognition in the presence of facial expression and poses variations is proposed. The method uses 3D shape data without color or texture information. A new matching algorithm based on conformal mapping of original facial surfaces onto a Riemannian manifold followed by comparison of conformal and isometric invariants computed in the manifold is suggested. Experimental results are presented using common 3D face databases that contain significant amount of expression and pose variations.

  4. Image fusion of Ultrasound Computer Tomography volumes with X-ray mammograms using a biomechanical model based 2D/3D registration.

    PubMed

    Hopp, T; Duric, N; Ruiter, N V

    2015-03-01

    Ultrasound Computer Tomography (USCT) is a promising breast imaging modality under development. Comparison to a standard method like mammography is essential for further development. Due to significant differences in image dimensionality and compression state of the breast, correlating USCT images and X-ray mammograms is challenging. In this paper we present a 2D/3D registration method to improve the spatial correspondence and allow direct comparison of the images. It is based on biomechanical modeling of the breast and simulation of the mammographic compression. We investigate the effect of including patient-specific material parameters estimated automatically from USCT images. The method was systematically evaluated using numerical phantoms and in-vivo data. The average registration accuracy using the automated registration was 11.9mm. Based on the registered images a method for analysis of the diagnostic value of the USCT images was developed and initially applied to analyze sound speed and attenuation images based on X-ray mammograms as ground truth. Combining sound speed and attenuation allows differentiating lesions from surrounding tissue. Overlaying this information on mammograms, combines quantitative and morphological information for multimodal diagnosis. PMID:25456144

  5. Development of a 3D finite element acoustic model to predict the sound reduction index of stud based double-leaf walls

    NASA Astrophysics Data System (ADS)

    Arjunan, A.; Wang, C. J.; Yahiaoui, K.; Mynors, D. J.; Morgan, T.; Nguyen, V. B.; English, M.

    2014-11-01

    Building standards incorporating quantitative acoustical criteria to ensure adequate sound insulation are now being implemented. Engineers are making great efforts to design acoustically efficient double-wall structures. Accordingly, efficient simulation models to predict the acoustic insulation of double-leaf wall structures are needed. This paper presents the development of a numerical tool that can predict the frequency dependent sound reduction index R of stud based double-leaf walls at one-third-octave band frequency range. A fully vibro-acoustic 3D model consisting of two rooms partitioned using a double-leaf wall, considering the structure and acoustic fluid coupling incorporating the existing fluid and structural solvers are presented. The validity of the finite element (FE) model is assessed by comparison with experimental test results carried out in a certified laboratory. Accurate representation of the structural damping matrix to effectively predict the R values are studied. The possibilities of minimising the simulation time using a frequency dependent mesh model was also investigated. The FEA model presented in this work is capable of predicting the weighted sound reduction index Rw along with A-weighted pink noise C and A-weighted urban noise Ctr within an error of 1 dB. The model developed can also be used to analyse the acoustically induced frequency dependent geometrical behaviour of the double-leaf wall components to optimise them for best acoustic performance. The FE modelling procedure reported in this paper can be extended to other building components undergoing fluid-structure interaction (FSI) to evaluate their acoustic insulation.

  6. Implementation of virtual models from sheet metal forming simulation into physical 3D colour models using 3D printing

    NASA Astrophysics Data System (ADS)

    Junk, S.

    2016-08-01

    Today the methods of numerical simulation of sheet metal forming offer a great diversity of possibilities for optimization in product development and in process design. However, the results from simulation are only available as virtual models. Because there are any forming tools available during the early stages of product development, physical models that could serve to represent the virtual results are therefore lacking. Physical 3D-models can be created using 3D-printing and serve as an illustration and present a better understanding of the simulation results. In this way, the results from the simulation can be made more “comprehensible” within a development team. This paper presents the possibilities of 3D-colour printing with particular consideration of the requirements regarding the implementation of sheet metal forming simulation. Using concrete examples of sheet metal forming, the manufacturing of 3D colour models will be expounded upon on the basis of simulation results.

  7. 3D reconstruction based on multiple views for close-range objects

    NASA Astrophysics Data System (ADS)

    Ji, Zheng; Zhang, Jianqing

    2007-06-01

    It is difficult for traditional photogrammetry techniques to reconstruct 3D model of close-range objects. To overcome the restriction and realize complex objects' 3D reconstruction, we present a realistic approach on the basis of multi-baseline stereo vision. This incorporates the image matching based on short-baseline-multi-views, and 3D measurement based on multi-ray intersection, and the 3D reconstruction of the object's based on TIN or parametric geometric model. Different complex object are reconstructed by this way. The results demonstrate the feasibility and effectivity of the method.

  8. Digital 3D Borobudur - Integration of 3D surveying and modeling techniques

    NASA Astrophysics Data System (ADS)

    Suwardhi, D.; Menna, F.; Remondino, F.; Hanke, K.; Akmalia, R.

    2015-08-01

    The Borobudur temple (Indonesia) is one of the greatest Buddhist monuments in the world, now listed as an UNESCO World Heritage Site. The present state of the temple is the result of restorations after being exposed to natural disasters several times. Today there is still a growing rate of deterioration of the building stones whose causes need further researches. Monitoring programs, supported at institutional level, have been effectively executed to observe the problem. The paper presents the latest efforts to digitally document the Borobudur Temple and its surrounding area in 3D with photogrammetric techniques. UAV and terrestrial images were acquired to completely digitize the temple, produce DEM, orthoimages and maps at 1:100 and 1:1000 scale. The results of the project are now employed by the local government organizations to manage the heritage area and plan new policies for the conservation and preservation of the UNESCO site. In order to help data management and policy makers, a web-based information system of the heritage area was also built to visualize and easily access all the data and achieved 3D results.

  9. Modeling tree crown dynamics with 3D partial differential equations.

    PubMed

    Beyer, Robert; Letort, Véronique; Cournède, Paul-Henry

    2014-01-01

    We characterize a tree's spatial foliage distribution by the local leaf area density. Considering this spatially continuous variable allows to describe the spatiotemporal evolution of the tree crown by means of 3D partial differential equations. These offer a framework to rigorously take locally and adaptively acting effects into account, notably the growth toward light. Biomass production through photosynthesis and the allocation to foliage and wood are readily included in this model framework. The system of equations stands out due to its inherent dynamic property of self-organization and spontaneous adaptation, generating complex behavior from even only a few parameters. The density-based approach yields spatially structured tree crowns without relying on detailed geometry. We present the methodological fundamentals of such a modeling approach and discuss further prospects and applications. PMID:25101095

  10. Modeling tree crown dynamics with 3D partial differential equations.

    PubMed

    Beyer, Robert; Letort, Véronique; Cournède, Paul-Henry

    2014-01-01

    We characterize a tree's spatial foliage distribution by the local leaf area density. Considering this spatially continuous variable allows to describe the spatiotemporal evolution of the tree crown by means of 3D partial differential equations. These offer a framework to rigorously take locally and adaptively acting effects into account, notably the growth toward light. Biomass production through photosynthesis and the allocation to foliage and wood are readily included in this model framework. The system of equations stands out due to its inherent dynamic property of self-organization and spontaneous adaptation, generating complex behavior from even only a few parameters. The density-based approach yields spatially structured tree crowns without relying on detailed geometry. We present the methodological fundamentals of such a modeling approach and discuss further prospects and applications.

  11. Multivariate 3D modelling of Scottish soil properties

    NASA Astrophysics Data System (ADS)

    Poggio, Laura; Gimona, Alessandro

    2015-04-01

    Information regarding soil properties across landscapes at national or continental scales is critical for better soil and environmental management and for climate regulation and adaptation policy. The prediction of soil properties variation in space and time and their uncertainty is an important part of environmental modelling. Soil properties, and in particular the 3 fractions of soil texture, exhibit strong co-variation among themselves and therefore taking into account this correlation leads to spatially more accurate results. In this study the continuous vertical and lateral distributions of relevant soil properties in Scottish soils were modelled with a multivariate 3D-GAM+GS approach. The approach used involves 1) modelling the multivariate trend with full 3D spatial correlation, i.e., exploiting the values of the neighbouring pixels in 3D-space, and 2) 3D kriging to interpolate the residuals. The values at each cell for each of the considered depth layers were defined using a hybrid GAM-geostatistical 3D model, combining the fitting of a GAM (generalised Additive Models) to estimate multivariate trend of the variables, using a 3D smoother with related covariates. Gaussian simulations of the model residuals were used as spatial component to account for local details. A dataset of about 26,000 horizons (7,800 profiles) was used for this study. A validation set was randomly selected as 25% of the full dataset. Numerous covariates derived from globally available data, such as MODIS and SRTM, are considered. The results of the 3D-GAM+kriging showed low RMSE values, good R squared and an accurate reproduction of the spatial structure of the data for a range of soil properties. The results have an out-of-sample RMSE between 10 to 15% of the observed range when taking into account the whole profile. The approach followed allows the assessment of the uncertainty of both the trend and the residuals.

  12. Macroscopic Carbon Nanotube-based 3D Monoliths.

    PubMed

    Du, Ran; Zhao, Qiuchen; Zhang, Na; Zhang, Jin

    2015-07-15

    Carbon nanotubes (CNTs) are one of the most promising carbon allotropes with incredible diverse physicochemical properties, thereby enjoying continuous worldwide attention since their discovery about two decades ago. From the point of view of practical applications, assembling individual CNTs into macroscopic functional and high-performance materials is of paramount importance. For example, multiscaled CNT-based assemblies including 1D fibers, 2D films, and 3D monoliths have been developed. Among all of these, monolithic 3D CNT architectures with porous structures have attracted increasing interest in the last few years. In this form, theoretically all individual CNTs are well connected and fully expose their surfaces. These 3D architectures have huge specific surface areas, hierarchical pores, and interconnected conductive networks, resulting in enhanced mass/electron transport and countless accessible active sites for diverse applications (e.g. catalysis, capacitors, and sorption). More importantly, the monolithic form of 3D CNT assemblies can impart additional application potentials to materials, such as free-standing electrodes, sensors, and recyclable sorbents. However, scaling the properties of individual CNTs to 3D assemblies, improving use of the diverse, structure-dependent properties of CNTs, and increasing the performance-to-cost ratio are great unsolved challenges for their real commercialization. This review aims to provide a comprehensive introduction of this young and energetic field, i.e., CNT-based 3D monoliths, with a focus on the preparation principles, current synthetic methods, and typical applications. Opportunities and challenges in this field are also presented.

  13. Shape: A 3D Modeling Tool for Astrophysics.

    PubMed

    Steffen, Wolfgang; Koning, Nicholas; Wenger, Stephan; Morisset, Christophe; Magnor, Marcus

    2011-04-01

    We present a flexible interactive 3D morpho-kinematical modeling application for astrophysics. Compared to other systems, our application reduces the restrictions on the physical assumptions, data type, and amount that is required for a reconstruction of an object's morphology. It is one of the first publicly available tools to apply interactive graphics to astrophysical modeling. The tool allows astrophysicists to provide a priori knowledge about the object by interactively defining 3D structural elements. By direct comparison of model prediction with observational data, model parameters can then be automatically optimized to fit the observation. The tool has already been successfully used in a number of astrophysical research projects.

  14. Defect modelling in an interactive 3-D CAD environment

    NASA Astrophysics Data System (ADS)

    Reilly, D.; Potts, A.; McNab, A.; Toft, M.; Chapman, R. K.

    2000-05-01

    This paper describes enhancement of the NDT Workbench, as presented at QNDE '98, to include theoretical models for the ultrasonic inspection of smooth planar defects, developed by British Energy and BNFL-Magnox Generation. The Workbench is a PC-based software package for the reconstruction, visualization and analysis of 3-D ultrasonic NDT data in an interactive CAD environment. This extension of the Workbeach now provides the user with a well established modelling approach, coupled with a graphical user interface for: a) configuring the model for flaw size, shape, orientation and location; b) flexible specification of probe parameters; c) selection of scanning surface and scan pattern on the CAD component model; d) presentation of the output as a simulated ultrasound image within the component, or as graphical or tabular displays. The defect modelling facilities of the Workbench can be used for inspection procedure assessment and confirmation of data interpretation, by comparison of overlay images generated from real and simulated data. The modelling technique currently implemented is based on the Geometrical Theory of Diffraction, for simulation of strip-like, circular or elliptical crack responses in the time harmonic or time dependent cases. Eventually, the Workbench will also allow modelling using elastodynamic Kirchhoff theory.

  15. Modeling 3-D Effects in the DIII-D Boundary

    NASA Astrophysics Data System (ADS)

    Evans, T. E.; Moyer, R. A.; Reiter, D.; Kasilov, S. V.; Runov, A. M.

    2002-11-01

    Resonant magnetic perturbations δ br from the DIII-D locked and resistive wall mode control coils (C-coil and I-coil, respectively) affect ne and Te profiles in both the pedestal and core. To understand why these δ br perturbations change the plasma profiles we first model the edge magnetic topology with a field line integration code, TRIP3D code. In general, the TRIP3D results indicate that the control coils create stochastic layers with as much as 25% edge magnetic flux connected to the divertors and walls. While heat and particle transport modeling in open stochastic layers is inherently very difficult, Monte Carlo methods appear to provide the most reasonable approach with which to address these issues. As such, we have assessed the possibility of coupling a recently developed Monte Carlo heat transport code, the E3D code, [A.M. Runov et al., Phys. Plasmas 8, 916 (2001)] to TRIP3D. We will discuss how this coupling can best be accomplished and what must be done to benchmark the TRIP3D/E3D ensemble using DIII-D experimental data. We will also discuss the analysis of proposed designs for a dedicated DIII-D stochastic boundary layer coil which produce minimal δ br core perturbations.

  16. Active Exploration of Large 3D Model Repositories.

    PubMed

    Gao, Lin; Cao, Yan-Pei; Lai, Yu-Kun; Huang, Hao-Zhi; Kobbelt, Leif; Hu, Shi-Min

    2015-12-01

    With broader availability of large-scale 3D model repositories, the need for efficient and effective exploration becomes more and more urgent. Existing model retrieval techniques do not scale well with the size of the database since often a large number of very similar objects are returned for a query, and the possibilities to refine the search are quite limited. We propose an interactive approach where the user feeds an active learning procedure by labeling either entire models or parts of them as "like" or "dislike" such that the system can automatically update an active set of recommended models. To provide an intuitive user interface, candidate models are presented based on their estimated relevance for the current query. From the methodological point of view, our main contribution is to exploit not only the similarity between a query and the database models but also the similarities among the database models themselves. We achieve this by an offline pre-processing stage, where global and local shape descriptors are computed for each model and a sparse distance metric is derived that can be evaluated efficiently even for very large databases. We demonstrate the effectiveness of our method by interactively exploring a repository containing over 100 K models. PMID:26529460

  17. Gene3D: modelling protein structure, function and evolution.

    PubMed

    Yeats, Corin; Maibaum, Michael; Marsden, Russell; Dibley, Mark; Lee, David; Addou, Sarah; Orengo, Christine A

    2006-01-01

    The Gene3D release 4 database and web portal (http://cathwww.biochem.ucl.ac.uk:8080/Gene3D) provide a combined structural, functional and evolutionary view of the protein world. It is focussed on providing structural annotation for protein sequences without structural representatives--including the complete proteome sets of over 240 different species. The protein sequences have also been clustered into whole-chain families so as to aid functional prediction. The structural annotation is generated using HMM models based on the CATH domain families; CATH is a repository for manually deduced protein domains. Amongst the changes from the last publication are: the addition of over 100 genomes and the UniProt sequence database, domain data from Pfam, metabolic pathway and functional data from COGs, KEGG and GO, and protein-protein interaction data from MINT and BIND. The website has been rebuilt to allow more sophisticated querying and the data returned is presented in a clearer format with greater functionality. Furthermore, all data can be downloaded in a simple XML format, allowing users to carry out complex investigations at their own computers.

  18. Molecular modeling studies on series of Btk inhibitors using docking, structure-based 3D-QSAR and molecular dynamics simulation: a combined approach.

    PubMed

    Balasubramanian, Pavithra K; Balupuri, Anand; Cho, Seung Joo

    2016-03-01

    Bruton tyrosine kinase (Btk) is a non-receptor tyrosine kinase. It is a crucial component in BCR pathway and expressed only in hematopoietic cells except T cells and Natural killer cells. BTK is a promising target because of its involvement in signaling pathways and B cell diseases such as autoimmune disorders and lymphoma. In this work, a combined molecular modeling study of molecular docking, 3D-QSAR and molecular dynamic (MD) simulation were performed on a series of 2,5-diaminopyrimidine compounds as inhibitors targeting Btk kinase to understand the interaction and key residues involved in the inhibition. A structure based CoMFA (q (2) = 0.675, NOC = 5, r (2) = 0.961) and COMSIA (q (2) = 0.704, NOC = 6, r (2) = 0.962) models were developed from the conformation obtained by docking. The developed models were subjected to various validation techniques such as leave-five-out, external test set, bootstrapping, progressive sampling and rm (2) metrics and found to have a good predictive ability in both internal and external validation. Our docking results showed the important residues that interacts in the active site residues in inhibition of Btk kinase. Furthermore, molecular dynamics simulation was employed to study the stability of the docked conformation and to investigate the binding interactions in detail. The MD simulation analyses identified several important hydrogen bonds with Btk, including the gatekeeper residue Thr474 and Met477 at the hinge region. Hydrogen bond with active site residues Leu408 and Arg525 were also recognized. A good correlation between the MD results, docking studies and the contour map analysis are observed. This indicates that the developed models are reliable. Our results from this study can provide insights in the designing and development of more potent Btk kinase inhibitors.

  19. A 3D finite element-based model order reduction method for parametric resonance and whirling analysis of anisotropic rotor-bearing systems

    NASA Astrophysics Data System (ADS)

    Wang, Shuai; Wang, Yu; Zi, Yanyang; He, Zhengjia

    2015-12-01

    A generalized and efficient model for rotating anisotropic rotor-bearing systems is presented in this paper with full considerations of the system's anisotropy in stiffness, inertia and damping. Based on the 3D finite element model and the model order reduction method, the effects of anisotropy in shaft and bearings on the forced response and whirling of anisotropic rotor-bearing systems are systematically investigated. First, the coefficients of journal bearings are transformed from the fixed frame to the rotating one. Due to the anisotropy in shaft and bearings, the motion is governed by differential equations with periodically time-variant coefficients. Then, a free-interface complex component mode synthesis (CMS) method is employed to generate efficient reduced-order models (ROM) for the periodically time-variant systems. In order to solve the obtained equations, a variant of Hill's method for systems with multiple harmonic excitations is developed. Four dimensionless parameters are defined to quantify the types and levels of anisotropy of bearings. Finally, the effects of the four types of anisotropy on the forced response and whirl orbits are studied. Numerical results show that the anisotropy of bearings in stiffness splits the sole resonant peak into two isolated ones, but the anisotropy of bearings in damping coefficients mainly affect the response amplitudes. Moreover, the whirl orbits become much more complex when the shaft and bearings are both anisotropic. In addition, the cross-coupling stiffness coefficients of bearings significantly affect the dynamic behaviors of the systems and cannot be neglected, though they are often much smaller than the principle stiffness terms.

  20. 3D ear identification based on sparse representation.

    PubMed

    Zhang, Lin; Ding, Zhixuan; Li, Hongyu; Shen, Ying

    2014-01-01

    Biometrics based personal authentication is an effective way for automatically recognizing, with a high confidence, a person's identity. Recently, 3D ear shape has attracted tremendous interests in research field due to its richness of feature and ease of acquisition. However, the existing ICP (Iterative Closet Point)-based 3D ear matching methods prevalent in the literature are not quite efficient to cope with the one-to-many identification case. In this paper, we aim to fill this gap by proposing a novel effective fully automatic 3D ear identification system. We at first propose an accurate and efficient template-based ear detection method. By utilizing such a method, the extracted ear regions are represented in a common canonical coordinate system determined by the ear contour template, which facilitates much the following stages of feature extraction and classification. For each extracted 3D ear, a feature vector is generated as its representation by making use of a PCA-based local feature descriptor. At the stage of classification, we resort to the sparse representation based classification approach, which actually solves an l1-minimization problem. To the best of our knowledge, this is the first work introducing the sparse representation framework into the field of 3D ear identification. Extensive experiments conducted on a benchmark dataset corroborate the effectiveness and efficiency of the proposed approach. The associated Matlab source code and the evaluation results have been made publicly online available at http://sse.tongji.edu.cn/linzhang/ear/srcear/srcear.htm.

  1. Fractal and fractional calculus to model hydrological processes with application to particle-based 2D and 3D landslide simulation

    NASA Astrophysics Data System (ADS)

    Martelloni, Gianluca; Bagnoli, Franco; Di Cintio, Pierfrancesco

    2015-04-01

    We integrate existing soil infiltration modeling with particle based methods in order to simulate two and three-dimensional setups of triggered landslides. Commonly, the infiltration models are based on continuum schemes (e.g. Eulerian approach) by means of which it is possible to define the field of the pore pressure within a soil. By contrast, the particle based methods follow a Lagrangian scheme that allows one to identify the particle trajectories and their dynamical properties. In this work, in order to simulate the triggering mechanism, we apply the classical, fractal and fractional Richards equations and the Mohr-Coulomb failure criterion, adapted to the molecular dynamics technique. In our scheme the (local) positive pore pressure is simply implemented as a perturbation of the rest state of each grain. Therefore, the pore pressure function can be interpreted as a time-space dependent scalar field acting on each particle. To initialize the system we generate, using a molecular dynamics based algorithm, a mechanically stable disk (2D) or sphere (3D) packing simulating the consolidated soil. In this way, we can built the micro and macro pore structure related to different infiltration time scales. The inter-particle interactions are modeled with a Lennard-Jones like potential. The particle positions are updated in time, after and during a rainfall, with standard molecular dynamics. We analyze the sensitivity of the model with respect to the variation of some parameters such as hydraulic conductivity, cohesion, slope and friction angle, soil depth and fractional order of the generalized infiltration model. In addition, we consider both regular and random particle configurations. The results of our simulations are found to be in agreement with real landslides. In particular, the mean velocity patterns of the simulated landslides appear extremely similar to the observed ones. Moreover, it is possible to apply the method of the inverse surface displacement

  2. 3D display based on parallax barrier with multiview zones.

    PubMed

    Lv, Guo-Jiao; Wang, Qiong-Hua; Zhao, Wu-Xiang; Wang, Jun

    2014-03-01

    A 3D display based on a parallax barrier with multiview zones is proposed. This display consists of a 2D display panel and a parallax barrier. The basic element of the parallax barrier has three narrow slits. They can show three columns of subpixels on the 2D display panel and form 3D pixels. The parallax barrier can provide multiview zones. In these multiview zones, the proposed 3D display can use a small number of views to achieve a high density of views. Therefore, the distance between views is the same as the conventional ones with more views. Considering the proposed display has fewer views, which bring more 3D pixels in the 3D images, the resolution and brightness will be higher than the conventional ones. A 12-view prototype of the proposed 3D display is developed, and it provides the same density of views as a conventional one with 28 views. Experimental results show the proposed display has higher resolution and brightness than the conventional one. The cross talk is also limited at a low level.

  3. STELLOPT Modeling of the 3D Diagnostic Response in ITER

    SciTech Connect

    Lazerson, Samuel A

    2013-05-07

    The ITER three dimensional diagnostic response to an n=3 resonant magnetic perturbation is modeled using the STELLOPT code. The in-vessel coils apply a resonant magnetic perturbation (RMP) fi eld which generates a 4 cm edge displacement from axisymmetry as modeled by the VMEC 3D equilibrium code. Forward modeling of flux loop and magnetic probe response with the DIAGNO code indicates up to 20 % changes in measured plasma signals. Simulated LIDAR measurements of electron temperature indicate 2 cm shifts on the low field side of the plasma. This suggests that the ITER diagnostic will be able to diagnose the 3D structure of the equilibria.

  4. Advanced prior modeling for 3D bright field electron tomography

    NASA Astrophysics Data System (ADS)

    Sreehari, Suhas; Venkatakrishnan, S. V.; Drummy, Lawrence F.; Simmons, Jeffrey P.; Bouman, Charles A.

    2015-03-01

    Many important imaging problems in material science involve reconstruction of images containing repetitive non-local structures. Model-based iterative reconstruction (MBIR) could in principle exploit such redundancies through the selection of a log prior probability term. However, in practice, determining such a log prior term that accounts for the similarity between distant structures in the image is quite challenging. Much progress has been made in the development of denoising algorithms like non-local means and BM3D, and these are known to successfully capture non-local redundancies in images. But the fact that these denoising operations are not explicitly formulated as cost functions makes it unclear as to how to incorporate them in the MBIR framework. In this paper, we formulate a solution to bright field electron tomography by augmenting the existing bright field MBIR method to incorporate any non-local denoising operator as a prior model. We accomplish this using a framework we call plug-and-play priors that decouples the log likelihood and the log prior probability terms in the MBIR cost function. We specifically use 3D non-local means (NLM) as the prior model in the plug-and-play framework, and showcase high quality tomographic reconstructions of a simulated aluminum spheres dataset, and two real datasets of aluminum spheres and ferritin structures. We observe that streak and smear artifacts are visibly suppressed, and that edges are preserved. Also, we report lower RMSE values compared to the conventional MBIR reconstruction using qGGMRF as the prior model.

  5. 3D MHD Models of Active Region Loops

    NASA Technical Reports Server (NTRS)

    Ofman, Leon

    2004-01-01

    Present imaging and spectroscopic observations of active region loops allow to determine many physical parameters of the coronal loops, such as the density, temperature, velocity of flows in loops, and the magnetic field. However, due to projection effects many of these parameters remain ambiguous. Three dimensional imaging in EUV by the STEREO spacecraft will help to resolve the projection ambiguities, and the observations could be used to setup 3D MHD models of active region loops to study the dynamics and stability of active regions. Here the results of 3D MHD models of active region loops are presented, and the progress towards more realistic 3D MHD models of active regions. In particular the effects of impulsive events on the excitation of active region loop oscillations, and the generation, propagations and reflection of EIT waves are shown. It is shown how 3D MHD models together with 3D EUV observations can be used as a diagnostic tool for active region loop physical parameters, and to advance the science of the sources of solar coronal activity.

  6. 3-D individual cell based computational modeling of tumor cell–macrophage paracrine signaling mediated by EGF and CSF-1 gradients†

    PubMed Central

    Knutsdottir, Hildur; Condeelis, John S.; Palsson, Eirikur

    2016-01-01

    High density of macrophages in mammary tumors has been associated with a higher risk of metastasis and thus increased mortality in women. The EGF/CSF-1 paracrine signaling increases the number of invasive tumor cells by both recruiting tumor cells further away and manipulating the macrophages’ innate ability to open up a passage into blood vessels thus promoting intravasation and finally metastasis. A 3-D individual-cell-based model is introduced, to better understand the tumor cell–macrophage interactions, and to explore how changing parameters of the paracrine signaling system affects the number of invasive tumor cells. The simulation data and videos of the cell movements correlated well with findings from both in vitro and in vivo experimental results. The model demonstrated how paracrine signaling is necessary to achieve co-migration of tumor cells and macrophages towards a specific signaling source. We showed how the paracrine signaling enhances the number of both invasive tumor cells and macrophages. The simulations revealed that for the in vitro experiments the imposed no-flux boundary condition might be affecting the results, and that changing the setup might lead to different experimental findings. In our simulations, the 3 : 1 tumor cell/macrophage ratio, observed in vivo, was robust for many parameters but sensitive to EGF signal strength and fraction of macrophages in the tumor. The model can be used to identify new agents for targeted therapy and we suggest that a successful strategy to prevent or limit invasion of tumor cells would be to block the tumor cell–macrophage paracrine signaling. This can be achieved by either blocking the EGF or CSF-1 receptors or supressing the EGF or CSF-1 signal. PMID:26686751

  7. Energy flow in passive and active 3D cochlear model

    NASA Astrophysics Data System (ADS)

    Wang, Yanli; Puria, Sunil; Steele, Charles

    2015-12-01

    Energy flow in the cochlea is an important characteristic of the cochlear traveling wave, and many investigators, such as von Békésy and Lighthill, have discussed this phenomenon. Particularly after the discovery of the motility of the outer hair cells (OHCs), the nature of the power gain of the cochlea has been a fundamental research question. In the present work, direct three-dimensional (3D) calculations of the power on cross sections of the cochlea and on the basilar membrane are performed based on a box model of the mouse cochlea. The distributions of the fluid pressure and fluid velocity in the scala vestibuli are presented. The power output from the OHCs and the power loss due to fluid viscous damping are calculated along the length of the cochlea. This work provides a basis for theoretical calculations of the power gain of the OHCs from mechanical considerations.

  8. Energy flow in passive and active 3D cochlear model

    SciTech Connect

    Wang, Yanli; Steele, Charles; Puria, Sunil

    2015-12-31

    Energy flow in the cochlea is an important characteristic of the cochlear traveling wave, and many investigators, such as von Békésy and Lighthill, have discussed this phenomenon. Particularly after the discovery of the motility of the outer hair cells (OHCs), the nature of the power gain of the cochlea has been a fundamental research question. In the present work, direct three-dimensional (3D) calculations of the power on cross sections of the cochlea and on the basilar membrane are performed based on a box model of the mouse cochlea. The distributions of the fluid pressure and fluid velocity in the scala vestibuli are presented. The power output from the OHCs and the power loss due to fluid viscous damping are calculated along the length of the cochlea. This work provides a basis for theoretical calculations of the power gain of the OHCs from mechanical considerations.

  9. Soil process-oriented modelling of within-field variability based on high-resolution 3D soil type distribution maps.

    NASA Astrophysics Data System (ADS)

    Bönecke, Eric; Lück, Erika; Gründling, Ralf; Rühlmann, Jörg; Franko, Uwe

    2016-04-01

    Today, the knowledge of within-field variability is essential for numerous purposes, including practical issues, such as precision and sustainable soil management. Therefore, process-oriented soil models have been applied for a considerable time to answer question of spatial soil nutrient and water dynamics, although, they can only be as consistent as their variation and resolution of soil input data. Traditional approaches, describe distribution of soil types, soil texture or other soil properties for greater soil units through generalised point information, e.g. from classical soil survey maps. Those simplifications are known to be afflicted with large uncertainties. Varying soil, crop or yield conditions are detected even within such homogenised soil units. However, recent advances of non-invasive soil survey and on-the-go monitoring techniques, made it possible to obtain vertical and horizontal dense information (3D) about various soil properties, particularly soil texture distribution which serves as an essential soil key variable affecting various other soil properties. Thus, in this study we based our simulations on detailed 3D soil type distribution (STD) maps (4x4 m) to adjacently built-up sufficient informative soil profiles including various soil physical and chemical properties. Our estimates of spatial STD are based on high-resolution lateral and vertical changes of electrical resistivity (ER), detected by a relatively new multi-sensor on-the-go ER monitoring device. We performed an algorithm including fuzzy-c-mean (FCM) logic and traditional soil classification to estimate STD from those inverted and layer-wise available ER data. STD is then used as key input parameter for our carbon, nitrogen and water transport model. We identified Pedological horizon depths and inferred hydrological soil variables (field capacity, permanent wilting point) from pedotransferfunctions (PTF) for each horizon. Furthermore, the spatial distribution of soil organic carbon

  10. 3D model of amphioxus steroid receptor complexed with estradiol

    SciTech Connect

    Baker, Michael E.; Chang, David J.

    2009-08-28

    The origins of signaling by vertebrate steroids are not fully understood. An important advance was the report that an estrogen-binding steroid receptor [SR] is present in amphioxus, a basal chordate with a similar body plan as vertebrates. To investigate the evolution of estrogen-binding to steroid receptors, we constructed a 3D model of amphioxus SR complexed with estradiol. This 3D model indicates that although the SR is activated by estradiol, some interactions between estradiol and human ER{alpha} are not conserved in the SR, which can explain the low affinity of estradiol for the SR. These differences between the SR and ER{alpha} in the steroid-binding domain are sufficient to suggest that another steroid is the physiological regulator of the SR. The 3D model predicts that mutation of Glu-346 to Gln will increase the affinity of testosterone for amphioxus SR and elucidate the evolution of steroid-binding to nuclear receptors.

  11. Validation of a 3-D hemispheric nested air pollution model

    NASA Astrophysics Data System (ADS)

    Frohn, L. M.; Christensen, J. H.; Brandt, J.; Geels, C.; Hansen, K. M.

    2003-07-01

    Several air pollution transport models have been developed at the National Environmental Research Institute in Denmark over the last decade (DREAM, DEHM, ACDEP and DEOM). A new 3-D nested Eulerian transport-chemistry model: REGIonal high resolutioN Air pollution model (REGINA) is based on modules and parameterisations from these models as well as new methods. The model covers the majority of the Northern Hemisphere with currently one nest implemented. The horizontal resolution in the mother domain is 150 km × 150 km, and the nesting factor is three. A chemical scheme (originally 51 species) has been extended with a detailed description of the ammonia chemistry and implemented in the model. The mesoscale numerical weather prediction model MM5v2 is used as meteorological driver for the model. The concentrations of air pollutants, such as sulphur and nitrogen in various forms, have been calculated, applying zero nesting and one nest. The model setup is currently being validated by comparing calculated values of concentrations to measurements from approximately 100 stations included in the European Monitoring and Evalutation Programme (EMEP). The present paper describes the physical processes and parameterisations of the model together with the modifications of the chemical scheme. Validation of the model calculations by comparison to EMEP measurements for a summer and a winter month is shown and discussed. Furthermore, results from a sensitivity study of the model performance with respect to resolution in emission and meteorology input data is presented. Finally the future prospects of the model are discussed. The overall validation shows that the model performs well with respect to correlation for both monthly and daily mean values.

  12. 3D model generation using an airborne swarm

    NASA Astrophysics Data System (ADS)

    Clark, R. A.; Punzo, G.; Dobie, G.; MacLeod, C. N.; Summan, R.; Pierce, G.; Macdonald, M.; Bolton, G.

    2015-03-01

    Using an artificial kinematic field to provide co-ordination between multiple inspection UAVs, the authors herein demonstrate full 3D modelling capability based on a photogrammetric system. The operation of the system is demonstrated by generating a full 3D surface model of an intermediate level nuclear waste storage drum. Such drums require periodic inspection to ensure that drum distortion or corrosion is carefully monitored. Performing this inspection with multiple airborne platforms enables rapid inspection of structures that are inaccessible to on-surface remote vehicles and are in human-hazardous environments. A three-dimensional surface-meshed model of the target can then be constructed in post-processing through photogrammetry analysis of the visual inspection data. The inspection environment uses a tracking system to precisely monitor the position of each aerial vehicle within the enclosure. The vehicles used are commercially available Parrot AR. Drone quadcopters, controlled through a computer interface connected over an IEEE 802.11n (WiFi) network, implementing a distributed controller for each vehicle. This enables the autonomous and distributed elements of the control scheme to be retained, while alleviating the vehicles of the control algorithm's computational load. The control scheme relies on a kinematic field defined with the target at its centre. This field defines the trajectory for all the drones in the volume relative to the central target, enabling the drones to circle the target at a set radius while avoiding drone collisions. This function enables complete coverage along the height of the object, which is assured by transitioning to another inspection band only after completing circumferential coverage. Using a swarm of vehicles, the time until complete coverage can be significantly reduced.

  13. 3D model generation using an airborne swarm

    SciTech Connect

    Clark, R. A.; Punzo, G.; Macdonald, M.; Dobie, G.; MacLeod, C. N.; Summan, R.; Pierce, G.; Bolton, G.

    2015-03-31

    Using an artificial kinematic field to provide co-ordination between multiple inspection UAVs, the authors herein demonstrate full 3D modelling capability based on a photogrammetric system. The operation of the system is demonstrated by generating a full 3D surface model of an intermediate level nuclear waste storage drum. Such drums require periodic inspection to ensure that drum distortion or corrosion is carefully monitored. Performing this inspection with multiple airborne platforms enables rapid inspection of structures that are inaccessible to on-surface remote vehicles and are in human-hazardous environments. A three-dimensional surface-meshed model of the target can then be constructed in post-processing through photogrammetry analysis of the visual inspection data. The inspection environment uses a tracking system to precisely monitor the position of each aerial vehicle within the enclosure. The vehicles used are commercially available Parrot AR. Drone quadcopters, controlled through a computer interface connected over an IEEE 802.11n (WiFi) network, implementing a distributed controller for each vehicle. This enables the autonomous and distributed elements of the control scheme to be retained, while alleviating the vehicles of the control algorithm’s computational load. The control scheme relies on a kinematic field defined with the target at its centre. This field defines the trajectory for all the drones in the volume relative to the central target, enabling the drones to circle the target at a set radius while avoiding drone collisions. This function enables complete coverage along the height of the object, which is assured by transitioning to another inspection band only after completing circumferential coverage. Using a swarm of vehicles, the time until complete coverage can be significantly reduced.

  14. Handheld camera 3D modeling system using multiple reference panels

    NASA Astrophysics Data System (ADS)

    Fujimura, Kouta; Oue, Yasuhiro; Terauchi, Tomoya; Emi, Tetsuichi

    2002-03-01

    A novel 3D modeling system in which a target object is easily captured and modeled by using a hand-held camera with several reference panels is presented in this paper. The reference panels are designed to be able to obtain the camera position and discriminate between each other. A conventional 3D modeling system using a reference panel has several restrictions regarding the target object, specifically the size and its location. Our system uses multiple reference panels, which are set around the target object to remove these restrictions. The main features of this system are as follows: 1) The whole shape and photo-realistic textures of the target object can be digitized based on several still images or a movie captured by using a hand-held camera; as well as each location of the camera that can be calculated using the reference panels. 2) Our system can be provided as a software product only. That means there are no special requirements for hardware; even the reference panels , because they can be printed from image files or software. 3) This system can be applied to digitize a larger object. In the experiments, we developed and used an interactive region selection tool to detect the silhouette on each image instead of using the chroma -keying method. We have tested our system with a toy object. The calculation time is about 10 minutes (except for the capturing the images and extracting the silhouette by using our tool) on a personal computer with a Pentium-III processor (600MHz) and 320MB memory. However, it depends on how complex the images are and how many images you use. Our future plan is to evaluate the system with various kind of objects, specifically, large ones in outdoor environments.

  15. A 3D-QSAR model based screen for dihydropyridine-like compound library to identify inhibitors of amyloid beta (Aβ) production.

    PubMed

    Mathura, Venkatarajan S; Patel, Nikunj; Bachmeier, Corbin; Mullan, Michael; Paris, Daniel

    2010-01-01

    Abnormal accumulation of amyloid beta peptide (Aβ) is one of the hallmarks of Alzheimer's disease progression. Practical limitations such as cost , poor hit rates and a lack of well characterized targets are a major bottle neck in the in vitro screening of a large number of chemical libraries and profiling them to identify Aβ inhibitors. We used a limited set of 1,4 dihydropyridine (DHP)-like compounds from our model set (MS) of 24 compounds which inhibit Aβ as a training set and built 3D-QSAR (Three-dimensional Quantitative Structure-Activity Relationship) models using the Phase program (SchrÖdinger, USA). We developed a 3D-QSAR model that showed the best prediction for Aβ inhibition in the test set of compounds and used this model to screen a 1,043 DHP-like small library set of (LS) compounds. We found that our model can effectively predict potent hits at a very high rate and result in significant cost savings when screening larger libraries. We describe here our in silico model building strategy, model selection parameters and the chemical features that are useful for successful screening of DHP and DHP-like chemical libraries for Aβ inhibitors. PMID:21364791

  16. Developing and Testing a 3d Cadastral Data Model a Case Study in Australia

    NASA Astrophysics Data System (ADS)

    Aien, A.; Kalantari, M.; Rajabifard, A.; Williamson, I. P.; Shojaei, D.

    2012-07-01

    and physical extent of 3D properties and associated interests. The data model extends the traditional cadastral requirements to cover other applications such as urban planning and land valuation and taxation. A demonstration of a test system on the proposed data model is also presented. The test is based on a case study in Victoria, Australia to evaluate the effectiveness of the data model.

  17. 3D Model Generation From the Engineering Drawing

    NASA Astrophysics Data System (ADS)

    Vaský, Jozef; Eliáš, Michal; Bezák, Pavol; Červeňanská, Zuzana; Izakovič, Ladislav

    2010-01-01

    The contribution deals with the transformation of engineering drawings in a paper form into a 3D computer representation. A 3D computer model can be further processed in CAD/CAM system, it can be modified, archived, and a technical drawing can be then generated from it as well. The transformation process from paper form to the data one is a complex and difficult one, particularly owing to the different types of drawings, forms of displayed objects and encountered errors and deviations from technical standards. The algorithm for 3D model generating from an orthogonal vector input representing a simplified technical drawing of the rotational part is described in this contribution. The algorithm was experimentally implemented as ObjectARX application in the AutoCAD system and the test sample as the representation of the rotational part was used for verificaton.

  18. Space Partitioning for Privacy Enabled 3D City Models

    NASA Astrophysics Data System (ADS)

    Filippovska, Y.; Wichmann, A.; Kada, M.

    2016-10-01

    Due to recent technological progress, data capturing and processing of highly detailed (3D) data has become extensive. And despite all prospects of potential uses, data that includes personal living spaces and public buildings can also be considered as a serious intrusion into people's privacy and a threat to security. It becomes especially critical if data is visible by the general public. Thus, a compromise is needed between open access to data and privacy requirements which can be very different for each application. As privacy is a complex and versatile topic, the focus of this work particularly lies on the visualization of 3D urban data sets. For the purpose of privacy enabled visualizations of 3D city models, we propose to partition the (living) spaces into privacy regions, each featuring its own level of anonymity. Within each region, the depicted 2D and 3D geometry and imagery is anonymized with cartographic generalization techniques. The underlying spatial partitioning is realized as a 2D map generated as a straight skeleton of the open space between buildings. The resulting privacy cells are then merged according to the privacy requirements associated with each building to form larger regions, their borderlines smoothed, and transition zones established between privacy regions to have a harmonious visual appearance. It is exemplarily demonstrated how the proposed method generates privacy enabled 3D city models.

  19. Geodiversity: Exploration of 3D geological model space

    NASA Astrophysics Data System (ADS)

    Lindsay, M. D.; Jessell, M. W.; Ailleres, L.; Perrouty, S.; de Kemp, E.; Betts, P. G.

    2013-05-01

    The process of building a 3D model necessitates the reconciliation of field observations, geophysical interpretation, geological data uncertainty and the prevailing tectonic evolution hypotheses and interpretations. Uncertainty is compounded when clustered data points collected at local scales are statistically upscaled to one or two points for use in regional models. Interpretation is required to interpolate between sparse field data points using ambiguous geophysical data in covered terranes. It becomes clear that multiple interpretations are possible during model construction. The various interpretations are considered as potential natural representatives, but pragmatism typically dictates that just a single interpretation is offered by the modelling process. Uncertainties are introduced into the 3D model during construction from a variety of sources and through data set optimisation that produces a single model. Practices such as these are likely to result in a model that does not adequately represent the target geology. A set of geometrical ‘geodiversity’ metrics are used to analyse a 3D model of the Gippsland Basin, southeastern Australia after perturbing geological input data via uncertainty simulation. The resulting sets of perturbed geological observations are used to calculate a suite of geological 3D models that display a range of geological architectures. The concept of biodiversity has been adapted for the geosciences to quantify geometric variability, or geodiversity, between models in order to understand the effect uncertainty has models geometry. Various geometrical relationships (depth, volume, contact surface area, curvature and geological complexity) are used to describe the range of possibilities exhibited throughout the model suite. End-member models geodiversity metrics are classified in a similar manner to taxonomic descriptions. Further analysis of the model suite is performed using principal component analysis (PCA) to determine

  20. 3D crustal seismic velocity model for the Gulf of Cadiz and adjacent areas (SW Iberia margin) based on seismic reflection and refraction profiles

    NASA Astrophysics Data System (ADS)

    Lozano, Lucía; Cantavella, Juan Vicente; Barco, Jaime; Carranza, Marta; Burforn, Elisa

    2016-04-01

    The Atlantic margin of the SW Iberian Peninsula and northern Morocco has been subject of study during the last 30 years. Many seismic reflection and refraction profiles have been carried out offshore, providing detailed information about the crustal structure of the main seafloor tectonic domains in the region, from the South Portuguese Zone and the Gulf of Cadiz to the Abyssal Plains and the Josephine Seamount. The interest to obtain a detailed and realistic velocity model for this area, integrating the available data from these studies, is clear, mainly to improve real-time earthquake hypocentral location and for tsunami and earthquake early warning. Since currently real-time seismic location tools allow the implementation of 3D velocity models, we aim to generate a full 3D crustal model. For this purpose we have reviewed more than 50 profiles obtained in different seismic surveys, from 1980 to 2008. Data from the most relevant and reliable 2D seismic velocity published profiles were retrieved. We first generated a Moho depth map of the studied area (latitude 32°N - 41°N and longitude 15°W - 5°W) by extracting Moho depths along each digitized profile with a 10 km spacing, and then interpolating this dataset using ordinary kriging method and generating the contour isodepth map. Then, a 3D crustal velocity model has been obtained. Selected vertical sections at different distances along each profile were considered to retrieve P-wave velocity values at each interface in order to reproduce the geometry and the velocity gradient within each layer. A double linear interpolation, both in distance and depth, with sampling rates of 10 km and 1 km respectively, was carried out to generate a (latitude, longitude, depth, velocity) matrix. This database of all the profiles was interpolated to obtain the P-wave velocity distribution map every kilometer of depth. The new 3D velocity model has been integrated in NonLinLoc location program to relocate several representative

  1. Determination of focal mechanisms of intermediate-magnitude earthquakes in Mexico, based on Greens functions calculated for a 3D Earth model

    NASA Astrophysics Data System (ADS)

    Rodrigo Rodríguez Cardozo, Félix; Hjörleifsdóttir, Vala

    2015-04-01

    One important ingredient in the study of the complex active tectonics in Mexico is the analysis of earthquake focal mechanisms, or the seismic moment tensor. They can be determined trough the calculation of Green functions and subsequent inversion for moment-tensor parameters. However, this calculation is gets progressively more difficult as the magnitude of the earthquakes decreases. Large earthquakes excite waves of longer periods that interact weakly with laterally heterogeneities in the crust. For these earthquakes, using 1D velocity models to compute the Greens fucntions works well. The opposite occurs for smaller and intermediate sized events, where the relatively shorter periods excited interact strongly with lateral heterogeneities in the crust and upper mantle and requires more specific or regional 3D models. In this study, we calculate Greens functions for earthquakes in Mexico using a laterally heterogeneous seismic wave speed model, comprised of mantle model S362ANI (Kustowski et al 2008) and crustal model CRUST 2.0 (Bassin et al 1990). Subsequently, we invert the observed seismograms for the seismic moment tensor using a method developed by Liu et al (2004) an implemented by Óscar de La Vega (2014) for earthquakes in Mexico. By following a brute force approach, in which we include all observed Rayleigh and Love waves of the Mexican National Seismic Network (Servicio Sismológico Naciona, SSN), we obtain reliable focal mechanisms for events that excite a considerable amount of low frequency waves (Mw > 4.8). However, we are not able to consistently estimate focal mechanisms for smaller events using this method, due to high noise levels in many of the records. Excluding the noisy records, or noisy parts of the records manually, requires interactive edition of the data, using an efficient tool for the editing. Therefore, we developed a graphical user interface (GUI), based on python and the python library ObsPy, that allows the edition of observed and

  2. 3D affine registration using teaching-learning based optimization

    NASA Astrophysics Data System (ADS)

    Jani, Ashish; Savsani, Vimal; Pandya, Abhijit

    2013-09-01

    3D image registration is an emerging research field in the study of computer vision. In this paper, two effective global optimization methods are considered for the 3D registration of point clouds. Experiments were conducted by applying each algorithm and their performance was evaluated with respect to rigidity, similarity and affine transformations. Comparison of algorithms and its effectiveness was tested for the average performance to find the global solution for minimizing the error in the terms of distance between the model cloud and the data cloud. The parameters for the transformation matrix were considered as the design variables. Further comparisons of the considered methods were done for the computational effort, computational time and the convergence of the algorithm. The results reveal that the use of TLBO was outstanding for image processing application involving 3D registration. [Figure not available: see fulltext.

  3. A 3D polarizing display system base on backlight control

    NASA Astrophysics Data System (ADS)

    Liu, Pu; Huang, Ziqiang

    2011-08-01

    In this paper a new three-dimensional (3D) liquid crystal display (LCD) display mode based on backlight control is presented to avoid the left and right eye images crosstalk in 3D display. There are two major issues in this new black frame 3D display mode. One is continuously playing every frame images twice. The other is controlling the backlight switch periodically. First, this paper explains the cause of the left and right eye images crosstalk, and presents a solution to avoid this problem. Then, we propose to play the entire frame images twice by repeating each frame image after it was played instead of playing the left images and the right images frame by frame alternately. Finally, the backlight is switched periodically instead of turned on all the time. The backlight is turned off while a frame of image is played for the first time, then turned on during the second time, after that it will be turned off again and run the next period with the next frame of image start to refresh. Controlling the backlight switch periodically like this is the key to achieve the black frame 3D display mode. This mode can not only achieve better 3D display effect by avoid the left and right image crosstalk, but also save the backlight power consumption. Theoretical analysis and experiments show that our method is reasonable and efficient.

  4. Teaching the geological subsurface with 3D models

    NASA Astrophysics Data System (ADS)

    Thorpe, Steve; Ward, Emma

    2014-05-01

    3D geological models have great potential as a resource when teaching geological concepts as it allows the student to visualise and interrogate UK geology. They are especially useful when dealing with the conversion of 2D field, map and GIS outputs into three dimensional geological units, which is a common problem for many students. Today's earth science students use a variety of skills and processes during their learning experience including spatial thinking, image construction, detecting patterns, making predictions and deducing the orientation of themselves. 3D geological models can reinforce spatial thinking strategies and encourage students to think about processes and properties, in turn helping the student to recognise pre-learnt geological principles in the field and to convert what they see at the surface into a picture of what is going on at depth. The British Geological Survey (BGS) has been producing digital 3D geological models for over 10 years. The models produced are revolutionising the working practices, data standards and products of the BGS. Sharing our geoscience information with academia is highlighted throughout the BGS strategy as is instilling practical skills in future geoscience professionals, such as model building and interpretation. In 2009 a project was launched to investigate the potential of the models as a teaching resource. The study included justifying if and how the models help students to learn, how models have been used historically, and how other forms of modelling are being used today. BGS now produce 3D geological models for use by anyone teaching or learning geoscience. They incorporate educational strategies that will develop geospatial skills and alleviate potential problems that some students experience. They are contained within contemporary case studies and show standard geological concepts, structures, sedimentary rocks, cross sections and field techniques. 3D geological models of the Isle of Wight and Ingleborough

  5. Shape control in wafer-based aperiodic 3D nanostructures

    NASA Astrophysics Data System (ADS)

    Jeong, Hyeon-Ho; Mark, Andrew G.; Gibbs, John G.; Reindl, Thomas; Waizmann, Ulrike; Weis, Jürgen; Fischer, Peer

    2014-06-01

    Controlled local fabrication of three-dimensional (3D) nanostructures is important to explore and enhance the function of single nanodevices, but is experimentally challenging. We present a scheme based on e-beam lithography (EBL) written seeds, and glancing angle deposition (GLAD) grown structures to create nanoscale objects with defined shapes but in aperiodic arrangements. By using a continuous sacrificial corral surrounding the features of interest we grow isolated 3D nanostructures that have complex cross-sections and sidewall morphology that are surrounded by zones of clean substrate.

  6. Vertical temperature dynamics in the Northern Baltic Sea based on 3D modelling and data from shallow-water Argo floats

    NASA Astrophysics Data System (ADS)

    Westerlund, Antti; Tuomi, Laura

    2016-06-01

    3D hydrodynamic models often produce errors in the depth of the mixed layer and the vertical density structure. We used the 3D hydrodynamic model NEMO to investigate the effect of vertical turbulence parameterisations on seasonal temperature dynamics in the Bothnian Sea, Baltic Sea for the years 2012 and 2013. We used vertical profiles from new shallow-water Argo floats, operational in the area since 2012, to validate our model. We found that NEMO was able to reproduce the general features of the seasonal temperature variations in the study area, when meteorological forcing was accurate. The k-ε and k-ω schemes were selected for a more detailed analysis. Both schemes showed clear differences, but neither proved superior. While sea surface temperature was better simulated with the k-ω scheme, thermocline depth was clearly better with the k-ε scheme. We investigated the effect of wave-breaking on the mixing of the surface layer. The Craig and Banner parameterisation clearly improved the representation of thermocline depth. However, further tuning of the mixing parameterisations for the Baltic Sea is needed to better simulate the vertical temperature structure. We found the autonomous Baltic Sea Argo floats valuable for model validation and performance evaluation.

  7. Impact of soil structure heterogeneity on the degradation of organic pollutants at the centimeter scale : 3D Modeling using graph based method

    NASA Astrophysics Data System (ADS)

    Sinclair Yemini, Francis; Chenu, Claire; Monga, Olivier; Vieuble Gonond, Laure; Juarez, Sabrina; Pihneiro, Marc; otten, Wilfred; Garnier, Patricia

    2014-05-01

    Contaminant degradation by microorganisms is very variable in soils because of the very heterogeneous spatial relationship of contaminant/degraders. Repacked Soil columns were carried out to study the degradation of 2,4D pesticide labelled with C14 for different scenarios of microorganisms and pesticide initial location. Measurements of global C14-CO2 emission and C14 distribution in the soil column showed that the initial location play a crucial rule on the dissipation of the pollutant. Experiments were simulated using a 3D model able to model microbial degradation and substrate diffusion between aggregates by considering explicitly the 3D structure of soil from CT images. The initial version of the model (Monga et al., 2008) was improved in order to simulate diffusion in samples of large size. Partial differential equations were implemented using freefem++ solver. The model simulates properly the dynamics of 2,4D in the column for the different initial situations. CT images of the same soil but using undisturbed structure instead of repacked aggregates were also carried out. Significant differences of the simulated results were observed between the repacked and the undisturbed soil. The conclusion of our work is that the heterogeneity of the soil structure and location of pollutants and decomposers has a very strong influence on the dissipation of pollutants.

  8. Assessment of 3D Models Used in Contours Studies

    ERIC Educational Resources Information Center

    Alvarez, F. J. Ayala; Parra, E. B. Blazquez; Tubio, F. Montes

    2015-01-01

    This paper presents an experimental research focusing on the view of first year students. The aim is to check the quality of implementing 3D models integrated in the curriculum. We search to determine students' preference between the various means facilitated in order to understand the given subject. Students have been respondents to prove the…

  9. Modeling the Properties of 3D Woven Composites

    NASA Technical Reports Server (NTRS)

    Cox, Brian N.

    1995-01-01

    An extensive study has been completed of the internal geometry, the mechanisms of failure, and the micromechanics of local failure events in graphite/epoxy composites with three dimensional (3D) woven reinforcement. This work has led to the development of models for predicting elastic constants, strength, notch sensitivity, and fatigue life. A summary is presented here.

  10. Verification and Validation of the k-kL Turbulence Model in FUN3D and CFL3D Codes

    NASA Technical Reports Server (NTRS)

    Abdol-Hamid, Khaled S.; Carlson, Jan-Renee; Rumsey, Christopher L.

    2015-01-01

    The implementation of the k-kL turbulence model using multiple computational uid dy- namics (CFD) codes is reported herein. The k-kL model is a two-equation turbulence model based on Abdol-Hamid's closure and Menter's modi cation to Rotta's two-equation model. Rotta shows that a reliable transport equation can be formed from the turbulent length scale L, and the turbulent kinetic energy k. Rotta's equation is well suited for term-by-term mod- eling and displays useful features compared to other two-equation models. An important di erence is that this formulation leads to the inclusion of higher-order velocity derivatives in the source terms of the scale equations. This can enhance the ability of the Reynolds- averaged Navier-Stokes (RANS) solvers to simulate unsteady ows. The present report documents the formulation of the model as implemented in the CFD codes Fun3D and CFL3D. Methodology, veri cation and validation examples are shown. Attached and sepa- rated ow cases are documented and compared with experimental data. The results show generally very good comparisons with canonical and experimental data, as well as matching results code-to-code. The results from this formulation are similar or better than results using the SST turbulence model.

  11. A cross-platform solution for light field based 3D telemedicine.

    PubMed

    Wang, Gengkun; Xiang, Wei; Pickering, Mark

    2016-03-01

    Current telehealth services are dominated by conventional 2D video conferencing systems, which are limited in their capabilities in providing a satisfactory communication experience due to the lack of realism. The "immersiveness" provided by 3D technologies has the potential to promote telehealth services to a wider range of applications. However, conventional stereoscopic 3D technologies are deficient in many aspects, including low resolution and the requirement for complicated multi-camera setup and calibration, and special glasses. The advent of light field (LF) photography enables us to record light rays in a single shot and provide glasses-free 3D display with continuous motion parallax in a wide viewing zone, which is ideally suited for 3D telehealth applications. As far as our literature review suggests, there have been no reports of 3D telemedicine systems using LF technology. In this paper, we propose a cross-platform solution for a LF-based 3D telemedicine system. Firstly, a novel system architecture based on LF technology is established, which is able to capture the LF of a patient, and provide an immersive 3D display at the doctor site. For 3D modeling, we further propose an algorithm which is able to convert the captured LF to a 3D model with a high level of detail. For the software implementation on different platforms (i.e., desktop, web-based and mobile phone platforms), a cross-platform solution is proposed. Demo applications have been developed for 2D/3D video conferencing, 3D model display and edit, blood pressure and heart rate monitoring, and patient data viewing functions. The demo software can be extended to multi-discipline telehealth applications, such as tele-dentistry, tele-wound and tele-psychiatry. The proposed 3D telemedicine solution has the potential to revolutionize next-generation telemedicine technologies by providing a high quality immersive tele-consultation experience. PMID:26689324

  12. A cross-platform solution for light field based 3D telemedicine.

    PubMed

    Wang, Gengkun; Xiang, Wei; Pickering, Mark

    2016-03-01

    Current telehealth services are dominated by conventional 2D video conferencing systems, which are limited in their capabilities in providing a satisfactory communication experience due to the lack of realism. The "immersiveness" provided by 3D technologies has the potential to promote telehealth services to a wider range of applications. However, conventional stereoscopic 3D technologies are deficient in many aspects, including low resolution and the requirement for complicated multi-camera setup and calibration, and special glasses. The advent of light field (LF) photography enables us to record light rays in a single shot and provide glasses-free 3D display with continuous motion parallax in a wide viewing zone, which is ideally suited for 3D telehealth applications. As far as our literature review suggests, there have been no reports of 3D telemedicine systems using LF technology. In this paper, we propose a cross-platform solution for a LF-based 3D telemedicine system. Firstly, a novel system architecture based on LF technology is established, which is able to capture the LF of a patient, and provide an immersive 3D display at the doctor site. For 3D modeling, we further propose an algorithm which is able to convert the captured LF to a 3D model with a high level of detail. For the software implementation on different platforms (i.e., desktop, web-based and mobile phone platforms), a cross-platform solution is proposed. Demo applications have been developed for 2D/3D video conferencing, 3D model display and edit, blood pressure and heart rate monitoring, and patient data viewing functions. The demo software can be extended to multi-discipline telehealth applications, such as tele-dentistry, tele-wound and tele-psychiatry. The proposed 3D telemedicine solution has the potential to revolutionize next-generation telemedicine technologies by providing a high quality immersive tele-consultation experience.

  13. Modeling Electric Current Flow in 3D Fractured Media

    NASA Astrophysics Data System (ADS)

    Demirel, S.; Roubinet, D.; Irving, J.

    2014-12-01

    The study of fractured rocks is extremely important in a variety of research fields and applications such as hydrogeology, hydrocarbon extraction and long-term storage of toxic waste. As fractures are highly conductive structures in comparison to the surrounding rock, their presence can be either an advantage or a drawback. For hydrocarbon extraction, fractures allow for quick and easy access to the resource whereas for toxic waste storage their presence increases the risk of leakage and migration of pollutants. In both cases, the identification of fracture network characteristics is an essential step. Recently, we have developed an approach for modeling electric current flow in 2D fractured media. This approach is based on a discrete-dual-porosity model where fractures are represented explicitly, the matrix is coarsely discretized into blocks, and current flow exchange between the fractures and matrix is analytically evaluated at the fracture-scale and integrated at the block-scale [1]. Although this approach has shown much promise and has proven its efficiency for 2D simulations, its extension to 3D remains to be addressed. To this end, we assume that fractures can be represented as two-dimensional finite planes embedded in the surrounding matrix, and we express analytically the distribution of electric potential at the fracture scale. This fracture-scale expression takes into account the electric-current-flow exchange with the surrounding matrix and flow conservation is enforced at the fracture intersections. The fracture-matrix exchange is then integrated at the matrix-block scale where the electric current flow conservation at the block boundaries is formulated with a modified finite volume method. With the objective of providing a low-computational-cost modeling approach adapted to 3D simulations in fractured media, our model is (i) validated and compared to existing modeling approaches and, (ii) used to evaluate the impact of the presence of fractures on

  14. 3D ear identification based on sparse representation.

    PubMed

    Zhang, Lin; Ding, Zhixuan; Li, Hongyu; Shen, Ying

    2014-01-01

    Biometrics based personal authentication is an effective way for automatically recognizing, with a high confidence, a person's identity. Recently, 3D ear shape has attracted tremendous interests in research field due to its richness of feature and ease of acquisition. However, the existing ICP (Iterative Closet Point)-based 3D ear matching methods prevalent in the literature are not quite efficient to cope with the one-to-many identification case. In this paper, we aim to fill this gap by proposing a novel effective fully automatic 3D ear identification system. We at first propose an accurate and efficient template-based ear detection method. By utilizing such a method, the extracted ear regions are represented in a common canonical coordinate system determined by the ear contour template, which facilitates much the following stages of feature extraction and classification. For each extracted 3D ear, a feature vector is generated as its representation by making use of a PCA-based local feature descriptor. At the stage of classification, we resort to the sparse representation based classification approach, which actually solves an l1-minimization problem. To the best of our knowledge, this is the first work introducing the sparse representation framework into the field of 3D ear identification. Extensive experiments conducted on a benchmark dataset corroborate the effectiveness and efficiency of the proposed approach. The associated Matlab source code and the evaluation results have been made publicly online available at http://sse.tongji.edu.cn/linzhang/ear/srcear/srcear.htm. PMID:24740247

  15. 3</