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https://www.readbyqxmd.com/read/28512434/evaluation-of-a-rapid-anisotropic-model-for-ecg-simulation
#1
Simone Pezzuto, Peter Kal'avský, Mark Potse, Frits W Prinzen, Angelo Auricchio, Rolf Krause
State-of-the-art cardiac electrophysiology models that are able to deliver physiologically motivated activation maps and electrocardiograms (ECGs) can only be solved on high-performance computing architectures. This makes it nearly impossible to adopt such models in clinical practice. ECG imaging tools typically rely on simplified models, but these neglect the anisotropic electric conductivity of the tissue in the forward problem. Moreover, their results are often confined to the heart-torso interface. We propose a forward model that fully accounts for the anisotropic tissue conductivity and produces the standard 12-lead ECG in a few seconds...
2017: Frontiers in Physiology
https://www.readbyqxmd.com/read/28509592/molecular-modeling-and-structure-activity-relationships-for-a-series-of-benzimidazole-derivatives-as-cruzain-inhibitors
#2
Ivani Pauli, Leonardo G Ferreira, Mariana L de Souza, Glaucius Oliva, Rafaela S Ferreira, Marco A Dessoy, Brian W Slafer, Luiz C Dias, Adriano D Andricopulo
AIM: Chagas disease is endemic in Latin America and no effective treatment is available. Efforts in drug research have focused on several enzymes from Trypanosoma cruzi, among which cruzain is a validated pharmacological target. METHODOLOGY: Chemometric analyses were performed on the data set using the HQSAR, CoMFA and CoMSIA methods. Docking simulations were executed using the crystallographic structure of cruzain in complex with a benzimidazole inhibitor. The top-scoring enzyme-inhibitor complexes were selected for the development of the 3D QSAR models and to assess the inhibitor binding modes and intermolecular interactions...
May 16, 2017: Future Medicinal Chemistry
https://www.readbyqxmd.com/read/28504935/efficient-three-dimensional-model-based-reconstruction-scheme-for-arbitrary-optoacoustic-acquisition-geometries
#3
Lu Ding, X Luis Dean Ben, Daniel Razansky
Optimal optoacoustic tomographic sampling is often hindered by the frequency-dependent directivity of ultrasound sensors, which can only be accounted for with an accurate three-dimensional (3D) model. Herein, we introduce a 3D modelbased reconstruction method applicable to optoacoustic imaging systems employing detection elements with arbitrary size and shape. The computational complexity and memory requirements are mitigated by introducing an efficient graphics processing unit (GPU)-based implementation of the iterative inversion...
May 12, 2017: IEEE Transactions on Medical Imaging
https://www.readbyqxmd.com/read/28500014/three-dimensional-visual-patient-based-on-electronic-medical-diagnostic-records
#4
Liehang Shi, Jianyong Sun, Yuanyuan Yang, Tonghui Ling, Mingqing Wang, Yiping Gu, Zhiming Yang, Yanqing Hua, Jianguo Zhang
OBJECTIVE: An innovative concept and method is introduced to use a three Dimensional (3D) anatomical graphic pattern called Visual Patient (VP) visually to index, represent and render the medical diagnostic records (MDRs) of a patient, so that a doctor can quickly learn the current and historical medical status of the patient by manipulating VP. The MDRs can be imaging diagnostic reports and DICOM images, laboratory reports and clinical summaries which can have clinical information relating to medical status of human organs or body parts...
May 8, 2017: IEEE Journal of Biomedical and Health Informatics
https://www.readbyqxmd.com/read/28472503/dssr-enhanced-visualization-of-nucleic-acid-structures-in-jmol
#5
Robert M Hanson, Xiang-Jun Lu
Sophisticated and interactive visualizations are essential for making sense of the intricate 3D structures of macromolecules. For proteins, secondary structural components are routinely featured in molecular graphics visualizations. However, the field of RNA structural bioinformatics is still lagging behind; for example, current molecular graphics tools lack built-in support even for base pairs, double helices, or hairpin loops. DSSR (Dissecting the Spatial Structure of RNA) is an integrated and automated command-line tool for the analysis and annotation of RNA tertiary structures...
May 3, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28472167/3d-forest-an-application-for-descriptions-of-three-dimensional-forest-structures-using-terrestrial-lidar
#6
Jan Trochta, Martin Krůček, Tomáš Vrška, Kamil Král
Terrestrial laser scanning is a powerful technology for capturing the three-dimensional structure of forests with a high level of detail and accuracy. Over the last decade, many algorithms have been developed to extract various tree parameters from terrestrial laser scanning data. Here we present 3D Forest, an open-source non-platform-specific software application with an easy-to-use graphical user interface with the compilation of algorithms focused on the forest environment and extraction of tree parameters...
2017: PloS One
https://www.readbyqxmd.com/read/28463308/computer-generated-hologram-with-occlusion-effect-using-layer-based-processing
#7
Hao Zhang, Liangcai Cao, Guofan Jin
We propose a layer-based algorithm with single-viewpoint rendering geometry to calculate a three-dimensional (3D) computer-generated hologram (CGH) with occlusion effect. The 3D scene is sliced into multiple parallel layers according to the depth information. Slab-based orthographic projection is implemented to generate shading information for each layer, which renders hidden primitives for occlusion processing. The layer-based angular spectrum with silhouette mask culling is used to calculate the wave propagations from the layers to the CGH plane without paraxial approximation...
May 1, 2017: Applied Optics
https://www.readbyqxmd.com/read/28450139/3d-fully-convolutional-networks-for-subcortical-segmentation-in-mri-a-large-scale-study
#8
REVIEW
Jose Dolz, Christian Desrosiers, Ismail Ben Ayed
This study investigates a 3D and fully convolutional neural network (CNN) for subcortical brain structure segmentation in MRI. 3D CNN architectures have been generally avoided due to their computational and memory requirements during inference. We address the problem via small kernels, allowing deeper architectures. We further model both local and global context by embedding intermediate-layer outputs in the final prediction, which encourages consistency between features extracted at different scales and embeds fine-grained information directly in the segmentation process...
April 24, 2017: NeuroImage
https://www.readbyqxmd.com/read/28436877/packing-vertex-data-into-hardware-decompressible-textures
#9
Kin Chung Kwan, Xuemiao Xu, Liang Wan, Tien-Tsin Wong, Wai-Man Pang
Most graphics hardware features memory to store textures and vertex data for rendering. However, because of the irreversible trend of increasing complexity of scenes, rendering a scene can easily reach the limit of memory resources. Thus, vertex data are preferably compressed, with a requirement that they can be decompressed during rendering. In this paper, we present a novel method to exploit existing hardware texture compression circuits to facilitate the decompression of vertex data in graphics processing unit (GPUs)...
April 18, 2017: IEEE Transactions on Visualization and Computer Graphics
https://www.readbyqxmd.com/read/28419715/a-survey-on-faculty-perspectives-on-the-transition-to-a-biochemistry-course-based-undergraduate-research-experience-laboratory
#10
Paul A Craig
It will always remain a goal of an undergraduate biochemistry laboratory course to engage students hands-on in a wide range of biochemistry laboratory experiences. In 2006, our research group initiated a project for in silico prediction of enzyme function based only on the 3D coordinates of the more than 3800 proteins "of unknown function" in the Protein Data Bank, many of which resulted from the Protein Structure Initiative. Students have used the ProMOL plugin to the PyMOL molecular graphics environment along with BLAST, Pfam, and Dali to predict protein functions...
April 16, 2017: Biochemistry and Molecular Biology Education
https://www.readbyqxmd.com/read/28417171/resolution-optimized-headspace-gas-chromatography-ion-mobility-spectrometry-hs-gc-ims-for-non-targeted-olive-oil-profiling
#11
Natalie Gerhardt, Markus Birkenmeier, Daniel Sanders, Sascha Rohn, Philipp Weller
A prototype gas chromatography-ion mobility spectrometry (GC-IMS) system, hyphenating temperature-ramped headspace GC to a modified drift time IMS cell, was evaluated and compared to a conventional, isothermal capillary column (CC)-IMS system on the example of the geographical differentiation of extra virgin olive oils (EVOO) from Spain and Italy. It allows orthogonal, 2D separation of complex samples and individual detection of compounds in robust and compact benchtop systems. The information from the high-resolution 3D fingerprints of volatile organic compound (VOC) fractions of EVOO samples were extracted by specifically developed chemometric MATLAB® routines to differentiate between the different olive oil provenances...
April 17, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28401432/feasibility-assessment-of-a-maldi-fticr-imaging-approach-for-the-3d-reconstruction-of-a-mouse-lung
#12
E Ellen Jones, Cristine Quiason, Stephanie Dale, Sheerin K Shahidi-Latham
Matrix assisted laser desorption ionization imaging mass spectrometry (MALDI IMS) has proven to be a quick, robust, and label-free tool to produce two-dimensional (2D) ion-density maps representing the distribution of a variety of analytes across a tissue section of interest. In addition, three-dimensional (3D) imaging mass spectrometry workflows have been developed that are capable of visualizing these same analytes throughout an entire volume of a tissue rather than a single cross-section. Until recently, the use of Fourier transform ion cyclotron resonance (FTICR) mass spectrometers for 3D volume reconstruction has been impractical due to software limitations, such as inadequate capacity to manipulate the extremely large data files produced during an imaging experiment...
April 11, 2017: Journal of the American Society for Mass Spectrometry
https://www.readbyqxmd.com/read/28380340/a-self-assisting-protein-folding-model-for-teaching-structural-molecular-biology
#13
Jodi Davenport, Michael Pique, Elizabeth Getzoff, Jon Huntoon, Adam Gardner, Arthur Olson
Structural molecular biology is now becoming part of high school science curriculum thus posing a challenge for teachers who need to convey three-dimensional (3D) structures with conventional text and pictures. In many cases even interactive computer graphics does not go far enough to address these challenges. We have developed a flexible model of the polypeptide backbone using 3D printing technology. With this model we have produced a polypeptide assembly kit to create an idealized model of the Triosephosphate isomerase mutase enzyme (TIM), which forms a structure known as TIM barrel...
April 4, 2017: Structure
https://www.readbyqxmd.com/read/28361323/slide-automatic-spine-level-identification-system-using-a-deep-convolutional-neural-network
#14
Jorden Hetherington, Victoria Lessoway, Vit Gunka, Purang Abolmaesumi, Robert Rohling
PURPOSE: Percutaneous spinal needle insertion procedures often require proper identification of the vertebral level to effectively and safely deliver analgesic agents. The current clinical method involves "blind" identification of the vertebral level through manual palpation of the spine, which has only 30% reported accuracy. Therefore, there is a need for better anatomical identification prior to needle insertion. METHODS: A real-time system was developed to identify the vertebral level from a sequence of ultrasound images, following a clinical imaging protocol...
March 30, 2017: International Journal of Computer Assisted Radiology and Surgery
https://www.readbyqxmd.com/read/28344609/treatment-planning-for-multicatheter-interstitial-brachytherapy-of-breast-cancer-from-paris-system-to-anatomy-based-inverse-planning
#15
REVIEW
Tibor Major, Csaba Polgár
In the last decades, treatment planning for multicatheter interstitial breast brachytherapy has evolved considerably from fluoroscopy-based 2D to anatomy-based 3D planning. To plan the right positions of the catheters, ultrasound or computed tomography (CT) imaging can be used, but the treatment plan is always based on postimplant CT images. With CT imaging, the 3D target volume can be defined more precisely and delineation of the organs at risk volumes is also possible. Consequently, parameters calculated from dose-volume histogram can be used for quantitative plan evaluation...
February 2017: Journal of Contemporary Brachytherapy
https://www.readbyqxmd.com/read/28341987/a-facile-synthesis-of-novel-three-dimensional-magnetic-imprinted-polymers-for-rapid-extraction-of-bovine-serum-albumin-in-bovine-calf-serum
#16
Liang Yan, Jing Wang, Piaopiao Lv, Dandan Xie, Zhaohui Zhang
A novel three-dimensional (3D) magnetic imprinted polymer was prepared with bovine serum albumin as the template molecule, dopamine as the functional monomer, and a graphene oxide and carbon nanotube hybrid 3D nanocomposite as the carrier. The preparation conditions for the 3D magnetic molecularly imprinted polymers were optimized. The 3D magnetic molecularly imprinted polymers were characterized in detail by scanning electron microscopy, Fourier transform infrared spectroscopy, and vibrating sample magnetometry...
March 24, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28323840/htc-vive-mevislab-integration-via-openvr-for-medical-applications
#17
Jan Egger, Markus Gall, Jürgen Wallner, Pedro Boechat, Alexander Hann, Xing Li, Xiaojun Chen, Dieter Schmalstieg
Virtual Reality, an immersive technology that replicates an environment via computer-simulated reality, gets a lot of attention in the entertainment industry. However, VR has also great potential in other areas, like the medical domain, Examples are intervention planning, training and simulation. This is especially of use in medical operations, where an aesthetic outcome is important, like for facial surgeries. Alas, importing medical data into Virtual Reality devices is not necessarily trivial, in particular, when a direct connection to a proprietary application is desired...
2017: PloS One
https://www.readbyqxmd.com/read/28303213/3d-nanomolding-and-fluid-mixing-in-micromixers-with-micro-patterned-microchannel-walls
#18
Bahador Farshchian, Alborz Amirsadeghi, Junseo Choi, Daniel S Park, Namwon Kim, Sunggook Park
Microfluidic devices where the microchannel walls were decorated with micro and nanostructures were fabricated using 3D nanomolding. Using 3D molded microfluidic devices with microchannel walls decorated with microscale gratings, the fluid mixing behavior was investigated through experiments and numerical simulation. The use of microscale gratings in the micromixer was predicated by the fact that large obstacles in a microchannel enhances the mixing performance. Slanted ratchet gratings on the channel walls resulted in a helical flow along the microchannel, thus increasing the interfacial area between fluids and cutting down the diffusion length...
2017: Nano Convergence
https://www.readbyqxmd.com/read/28275889/automatic-anatomical-labeling-of-arteries-and-veins-using-conditional-random-fields
#19
Takayuki Kitasaka, Mitsuru Kagajo, Yukitaka Nimura, Yuichiro Hayashi, Masahiro Oda, Kazunari Misawa, Kensaku Mori
PURPOSE: For safe and reliable laparoscopic surgery, it is important to determine individual differences of blood vessels such as the position, shape, and branching structures. Consequently, a computer-assisted laparoscopy that displays blood vessel structures with anatomical labels would be extremely beneficial. This paper details an automated anatomical labeling method for abdominal arteries and veins extracted from 3D CT volumes. METHODS: The proposed method represents a blood vessel tree as a probabilistic graphical model by conditional random fields (CRFs)...
March 8, 2017: International Journal of Computer Assisted Radiology and Surgery
https://www.readbyqxmd.com/read/28269466/heart-activity-monitoring-using-3d-hologram-based-on-smartphone
#20
Tharoeun Thap, Heewon Chung, Jinseok Lee
In this paper, we used smartphone to obtained pulsatile signal from a fingertip by illuminating the skin tissue using flashlight and with an on-board camera to record the change of the light intensity reflected from the tissue. The pulsatile signal is produced by analyzing average green component values of the frames taken by the camera and the heart rate is estimated in real time by detecting the pulse peaks. Based on each instant obtained heartbeat, we design a heart animation that beats according to each interval of the heartbeat...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
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