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Simulation AND Virtual

Martin Dobricki, Paul Pauli
Almost all living species regularly explore environments that they experience as pleasant, aversive, arousing or frightening. We postulate that such exploratory behavior and emotional experience both are regulated based on the interdependent perception of one's body and stimuli that collectively define a spatial context such as a cliff. Here we examined this by testing if the interaction of the sensory input on one's gait and the sensory input on the spatial context is modulating both the emotional experience of the environment and its exploration through head motion...
October 2016: Heliyon
Yong In Cho, Ja Mee Kim, Jung Hoon Kim
The dose distribution in the ocular organs of nuclear medicine workers during the handling of diagnostic radionuclides was assessed via simulation in virtual space. The cornea and lenses received the highest dose, and the dose distribution tended to be proportional to the gamma-ray energy emitted from the radiation source being handled. Moreover, calculations on the dose-reduction effects of eyewear protectors for the eyes of the workers showed that the effects were inversely proportional to the emitted gamma-ray energy, with the dose-reduction effect decreasing in the order of (201)Tl, (123)I, (99m)Tc, (67)Ga, (111)In and (18)F...
October 20, 2016: Radiation Protection Dosimetry
Alex R Hardisty, Finn Bacall, Niall Beard, Maria-Paula Balcázar-Vargas, Bachir Balech, Zoltán Barcza, Sarah J Bourlat, Renato De Giovanni, Yde de Jong, Francesca De Leo, Laura Dobor, Giacinto Donvito, Donal Fellows, Antonio Fernandez Guerra, Nuno Ferreira, Yuliya Fetyukova, Bruno Fosso, Jonathan Giddy, Carole Goble, Anton Güntsch, Robert Haines, Vera Hernández Ernst, Hannes Hettling, Dóra Hidy, Ferenc Horváth, Dóra Ittzés, Péter Ittzés, Andrew Jones, Renzo Kottmann, Robert Kulawik, Sonja Leidenberger, Päivi Lyytikäinen-Saarenmaa, Cherian Mathew, Norman Morrison, Aleksandra Nenadic, Abraham Nieva de la Hidalga, Matthias Obst, Gerard Oostermeijer, Elisabeth Paymal, Graziano Pesole, Salvatore Pinto, Axel Poigné, Francisco Quevedo Fernandez, Monica Santamaria, Hannu Saarenmaa, Gergely Sipos, Karl-Heinz Sylla, Marko Tähtinen, Saverio Vicario, Rutger Aldo Vos, Alan R Williams, Pelin Yilmaz
BACKGROUND: Making forecasts about biodiversity and giving support to policy relies increasingly on large collections of data held electronically, and on substantial computational capability and capacity to analyse, model, simulate and predict using such data. However, the physically distributed nature of data resources and of expertise in advanced analytical tools creates many challenges for the modern scientist. Across the wider biological sciences, presenting such capabilities on the Internet (as "Web services") and using scientific workflow systems to compose them for particular tasks is a practical way to carry out robust "in silico" science...
October 20, 2016: BMC Ecology
Fan Zhang, Min Wu, Chee Keong Kwoh, Jie Zheng
Extracellular signals are captured and transmitted by signaling proteins inside a cell. An important type of cellular responses to the signals is the cell fate decision, e.g., apoptosis. However, the underlying mechanisms of cell fate regulation are still unclear, thus comprehensive and detailed kinetic models are not yet available. Alternatively, data-driven models are promising to bridge signaling data with the phenotypic measurements of cell fates. The traditional linear model for data-driven modeling of signaling pathways has its limitations because it assumes that the a cell fate is proportional to the activities of signaling proteins, which is unlikely in the complex biological systems...
2016: PloS One
Amit Persad, Eleni Stroulia, Sarah Forgie
No abstract text is available yet for this article.
November 2016: Medical Education
Sergei Kurenov, Juan Cendan, Saleh Dindar, Kristopher Attwood, James Hassett, Ruth Nawotniak, Gregory Cherr, William G Cance, Jörg Peters
OBJECTIVE: The study assesses user acceptance and effectiveness of a surgeon-authored virtual reality (VR) training module authored by surgeons using the Toolkit for Illustration of Procedures in Surgery (TIPS). METHODS: Laparoscopic adrenalectomy was selected to test the TIPS framework on an unusual and complex procedure. No commercial simulation module exists to teach this procedure. A specialist surgeon authored the module, including force-feedback interactive simulation, and designed a quiz to test knowledge of the key procedural steps...
October 6, 2016: Surgical Innovation
Michel Debacker, Filip Van Utterbeeck, Christophe Ullrich, Erwin Dhondt, Ives Hubloue
It is recognized that the study of the disaster medical response (DMR) is a relatively new field. To date, there is no evidence-based literature that clearly defines the best medical response principles, concepts, structures and processes in a disaster setting. Much of what is known about the DMR results from descriptive studies and expert opinion. No experimental studies regarding the effects of DMR interventions on the health outcomes of disaster survivors have been carried out. Traditional analytic methods cannot fully capture the flow of disaster victims through a complex disaster medical response system (DMRS)...
December 2016: Journal of Medical Systems
Baki Vijaya Bhaskar, Tirumalasetty Muni Chandra Babu, Netala Vasudeva Reddy, Wudayagiri Rajendra
Emerging drug resistance in clinical isolates of Staphylococcus aureus might be implicated to the overexpression of NorA efflux pump which is capable of extruding numerous structurally diverse compounds. However, NorA efflux pump is considered as a potential drug target for the development of efflux pump inhibitors. In the present study, NorA model was constructed based on the crystal structure of glycerol-3-phosphate transporter (PDBID: 1PW4). Molecular dynamics (MD) simulation was performed using NAMD2.7 for NorA which is embedded in the hydrated lipid bilayer...
2016: Drug Design, Development and Therapy
Harsh Pipalia, Praveen Ganesh, Samarth Shetty, Paul C Salins, Rohan Raut, Kiran Kumar Boyina
Three-dimensional virtual surgery programs are widely available for orthognathic surgery. The advent of imaging software programs has proved to be useful for diagnosis, treatment planning, outcome measurement, and three-dimensional surgical simulation. Complex maxillofacial malformations continue to present challenges in analysis and correction beyond modern technology. Orthomorphic correction for mandibular dysmorphology refers to basal bone movement without any change in dental component. The purpose of this paper is to present a virtual surgery planning for surgeons to perform the orthomorphic surgery with precision and quantification...
October 14, 2016: Journal of Craniofacial Surgery
Gang Chen, Paul A Taylor, Yong-Wook Shin, Richard C Reynolds, Robert W Cox
It has been argued that naturalistic conditions in FMRI studies provide a useful paradigm for investigating perception and cognition through a synchronization measure, inter-subject correlation (ISC). However, one analytical stumbling block has been the fact that the ISC values associated with each single subject are not independent, and our previous paper (Chen et al., 2016) used simulations and analyses of real data to show that the methodologies adopted in the literature do not have the proper control for false positives...
October 14, 2016: NeuroImage
Magdalena Anna Mozolewska, Pawel Krupa, Bartlomiej Zaborowski, Adam Liwo, Jooyoung Lee, Keehyoung Joo, Cezary Czaplewski
Recently, we developed a new approach to protein-structure prediction, which combines template-based modeling with the physics-based coarse-grained UNited RESidue (UNRES) force field. In this approach, restrained multiplexed replica exchange molecular dynamics (MREMD) simulations with UNRES, with the C(α)-distance and virtual-bond-dihedral-angle restraints derived from knowledge-based models are carried out. In this work, we report a test of this approach in the 11th Community Wide Experiment on the Critical Assessment of Techniques for Protein Structure Prediction (CASP11), in which we used the template-based models from early-stage predictions by the LEE group CASP11 server (group 038, called 'nns'), and further improvement of the method...
October 17, 2016: Journal of Chemical Information and Modeling
Zhongmin Wang, Yuhao Liu, Yu Xu, Chuanyu Gao, Yan Chen, Hongxing Luo
BACKGROUND: WE AIMED TO PROSPECTIVELY EVALUATE THE: use of 3-dimensional printing (3DP) for the percutaneous transcatheter closure of a secundum atrial septal defect (ASD) with rim deficiency less than 5 mm. METHODS: Patients with ASD were scanned using multi-slice computed tomography to acquire raw data for virtual 3DP reconstruction models. Different ASD occluders were tried on the 3DP models to select the optimal size for intraoperative use. The patients were followed up 1 month postoperatively, and 3DP models were again manufactured to observe the operative effects...
October 17, 2016: Cardiology Journal
Allen Q Ye, Olusola A Ajilore, Giorgio Conte, Johnson GadElkarim, Galen Thomas-Ramos, Liang Zhan, Shaolin Yang, Anand Kumar, Richard L Magin, Angus G Forbes, Alex D Leow
This paper describes novel methods for constructing the intrinsic geometry of the human brain connectome using dimensionality-reduction techniques. We posit that the high-dimensional, complex geometry that represents this intrinsic topology can be mathematically embedded into lower dimensions using coupling patterns encoded in the corresponding brain connectivity graphs. We tested both linear and nonlinear dimensionality-reduction techniques using the diffusion-weighted structural connectome data acquired from a sample of healthy subjects...
December 2015: Brain Informatics
Robert D Gregg, Anne E Martin
Recent work has extended the control method of virtual constraints, originally developed for autonomous walking robots, to powered prosthetic legs for lower-limb amputees. Virtual constraints define desired joint patterns as functions of a mechanical phasing variable, which are typically enforced by torque control laws that linearize the output dynamics associated with the virtual constraints. However, the output dynamics of a powered prosthetic leg generally depend on the human interaction forces, which must be measured and canceled by the feedback linearizing control law...
July 2016: Proceedings of the ... American Control Conference
A Paini, M Mennecozzi, T Horvat, K Gerloff, T Palosaari, J V Sala Benito, A Worth
The Virtual Cell Based Assay (VCBA) was applied to simulate the long-term (repeat dose) toxic effects of chemicals, including substances in cosmetics and personal care products. The presented model is an extension of the original VCBA for simulation of single exposure and is implemented in a KNIME workflow. This work illustrates the steps taken to simulate the repeat dose effects of two reference compounds. i) Using caffeine, in vitro experimental viability data in single and repeated exposure from two human liver cell lines, HepG2 and HepaRG, were measured and used to optimize the VCBA...
October 13, 2016: Toxicology in Vitro: An International Journal Published in Association with BIBRA
Yan-Lin Liu, Guo-Yang Li, Ping He, Ze-Qi Mao, Yanping Cao
Determining the mechanical properties of brain tissues is essential in such cases as the surgery planning and surgical training using virtual reality based simulators, trauma research and the diagnosis of some diseases that alter the elastic properties of brain tissues. Here, we suggest a protocol to measure the temperature-dependent elastic properties of brain tissues in physiological saline using the shear wave elastography method. Experiments have been conducted on six porcine brains. Our results show that the shear moduli of brain tissues decrease approximately linearly with a slope of -0...
September 21, 2016: Journal of the Mechanical Behavior of Biomedical Materials
Jacques Vermeulen
PURPOSE: To investigate the difference in accuracy between freehand and guided single-implant placement in situations with one or more missing teeth as performed by experienced surgeons. MATERIALS AND METHODS: A total of 80 implants were placed by 10 experienced clinicians in the anterior site of maxillary models, made of polyamide by selective laser sintering and mounted in a dummy head. Each clinician performed the same four single-implant cases via freehand surgery and then with a three-dimensional fabricated SIMPLANT Guide...
October 14, 2016: International Journal of Oral & Maxillofacial Implants
A Lourenço, N Wellock, R Thomas, M Homer, H Bouchard, T Kanai, N MacDougall, G Royle, H Palmans
Water-equivalent plastics are frequently used in dosimetry for experimental simplicity. This work evaluates the water-equivalence of novel water-equivalent plastics specifically designed for light-ion beams, as well as commercially available plastics in a clinical high-energy carbon-ion beam. A plastic- to-water conversion factor [Formula: see text] was established to derive absorbed dose to water in a water phantom from ionization chamber readings performed in a plastic phantom. Three trial plastic materials with varying atomic compositions were produced and experimentally characterized in a high-energy carbon-ion beam...
October 14, 2016: Physics in Medicine and Biology
Sherrill J Smith, Sharon Farra, Deborah L Ulrich, Eric Hodgson, Stephanie Nicely, William Matcham
AIM: The purpose of this study was to examine the longitudinal effects of virtual reality simulation (VRS) on learning outcomes and retention. BACKGROUND: Disaster preparation for health care professionals is seriously inadequate. VRS offers an opportunity to practice within a realistic and safe environment, but little is known about learning and retention using this pedagogy. METHOD: A quasiexperimental design was used to examine the use of VRS with baccalaureate nursing students in two different nursing programs in terms of the skill of decontamination...
July 2016: Nursing Education Perspectives
F Puosi, J Rottler, J-L Barrat
The onset of irreversible deformation in low-temperature amorphous solids is due to the accumulation of elementary events, consisting of spatially and temporally localized atomic rearrangements involving only a few tens of atoms. Recently, numerical and experimental work addressed the issue of spatiotemporal correlations between these plastic events. Here, we provide further insight into these correlations by investigating, via molecular dynamics (MD) simulations, the plastic response of a two-dimensional amorphous solid to artificially triggered local shear transformations...
September 2016: Physical Review. E
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