62 results match your criteria Procedia in Vaccinology [Journal]


The influence of selected factors on leaching of metals from sewage sludge.

Environ Sci Pollut Res Int 2018 Nov 25;25(33):33240-33248. Epub 2018 Sep 25.

Faculty of Architecture, Civil and Environmental Engineering, Lodz University of Technology, Politechniki 6, 90-924, Lodz, Poland.

In Poland, the amount of municipal sewage sludge that contains both organic and inorganic pollutants increases steadily. As a result of penetration of atmospheric precipitations through sludge layers, products of biochemical decomposition of organic matter and soluble mineral compounds are washed away and form contaminated leachates (Arain, J. Hazard. Read More

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November 2018
2 Reads

Water near its Supercritical Point and at Alkaline pH for the Production of Ferric Oxides and Silicates in Anoxic Conditions. A New Hypothesis for the Synthesis of Minerals Observed in Banded Iron Formations and for the Related Geobiotropic Chemistry inside Fluid Inclusions.

Orig Life Evol Biosph 2018 Sep 8;48(3):289-320. Epub 2018 Aug 8.

Institut de Technologie, Université de Strasbourg, 67400 Illkirch-Graffenstaden, Strasbourg, France.

An alternative hypothesis for the origin of the banded iron formations and the synthesis of prebiotic molecules is presented here. I show the importance of considering water near its supercritical point and at alkaline pH. It is based on the chemical equation for the anoxic oxidation of ferrous iron into ferric iron at high-subcritical conditions of water and high pH, that I extract from E-pH diagrams drawn for corrosion purposes (Geophysical Research Abstracts Vol 15, EGU2013-22 Bassez 2013, Orig Life Evol Biosph 45(1):5-13, Bassez 2015, Procedia Earth Planet Sci 17, 492-495, Bassez 2017a, Orig Life Evol Biosph 47:453-480, Bassez 2017b). Read More

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September 2018

Physiological underarousal as a mechanism of aggressive behavior in university athletes with a history of concussion.

Brain Behav 2018 Aug 20;8(8):e01038. Epub 2018 Jul 20.

Department of Psychology, Brock University, St. Catharines, ON, Canada.

Introduction: Research has indicated that athletes who engage in high-risk athletic activities, such as football and hockey, have riskier personalities than their low-risk and nonathlete counterparts (Ahmadi et al., 2011, Procedia Soc Behav Sci, 30 and 247-251; Zuckerman, 1983, Biological bases of sensation seeking, impulsivity, and anxiety, Lawrence Erlbaum Assoc Inc.). Read More

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Direct Bio-printing with Heterogeneous Topology Design.

Procedia Manuf 2017 7;10:945-956. Epub 2017 Jul 7.

Industrial and Manufacturing Engineering, North Dakota State University, Fargo, ND, 58102, USA.

Bio-additive manufacturing is a promising tool to fabricate porous scaffold structures for expediting the tissue regeneration processes. Unlike the most traditional bulk material objects, the microstructures of tissue and organs are mostly highly anisotropic, heterogeneous, and porous in nature. However, modelling the internal heterogeneity of tissues/organs structures in the traditional CAD environment is difficult and oftentimes inaccurate. Read More

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July 2017
1 Read

A review of engineered zirconia surfaces in biomedical applications.

Procedia CIRP 2017 21;65:284-290. Epub 2017 Jul 21.

Department of Biomaterials and Biomimetics, New York University College of Dentistry, New York, NY 100010, USA.

Zirconia is widely used for load-bearing functional structures in medicine and dentistry. The quality of engineered zirconia surfaces determines not only the fracture and fatigue behaviour but also the low temperature degradation (ageing sensitivity), bacterial colonization and bonding strength of zirconia devices. This paper reviews the current manufacturing techniques for fabrication of zirconia surfaces in biomedical applications, particularly, in tooth and joint replacements, and influences of the zirconia surface quality on their functional behaviours. Read More

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July 2017
3 Reads

Numerical simulation of a compound capsule in a constricted microchannel.

Procedia Comput Sci 2017 ;108:175-184

Department of Biomedical Engineering, Duke University, Durham, NC.

Simulations of the passage of eukaryotic cells through a constricted channel aid in studying the properties of cancer cells and their transport in the bloodstream. Compound capsules, which explicitly model the outer cell membrane and nuclear lamina, have the potential to improve computational model fidelity. However, general simulations of compound capsules transiting a constricted microchannel have not been conducted and the influence of the compound capsule model on computational performance is not well known. Read More

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January 2017
1 Read

Kepler WebView: A Lightweight, Portable Framework for Constructing Real-time Web Interfaces of Scientific Workflows.

Procedia Comput Sci 2016 ;80:673-679

San Diego Supercomputer Center, University of California, San Diego.

Modern web technologies facilitate the creation of high-quality data visualizations, and rich, interactive components across a wide variety of devices. Scientific workflow systems can greatly benefit from these technologies by giving scientists a better understanding of their data or model leading to new insights. While several projects have enabled web access to scientific workflow systems, they are primarily organized as a large portal server encapsulating the workflow engine. Read More

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January 2016

Faraday efficiency and mechanism of electrochemical surface reactions: CO reduction and H formation on Pt(111).

Faraday Discuss 2016 12;195:619-636

Science Institute and Faculty of Physical Sciences, University of Iceland VR-III, 107 Reykjavík, Iceland.

An atomic scale model of the electrical double layer is used to calculate the mechanism and rate of electrochemical reduction of CO as well as H formation at a Pt(111) electrode. The water layer contains solvated protons and the electrode has excess electrons at the surface. Density functional theory within the generalized gradient approximation is used to describe the electronic structure while the mechanism and activation energy of the various elementary reactions is obtained by calculating minimum energy paths using the nudged elastic band method. Read More

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December 2016
2 Reads

Biomedical Big Data Training Collaborative (BBDTC): An effort to bridge the talent gap in biomedical science and research.

Procedia Comput Sci 2016 Jun;80:1791-1800

San Diego Supercomputer Center, University of California, San Diego, USA.

The BBDTC (https://biobigdata.ucsd.edu) is a community-oriented platform to encourage high-quality knowledge dissemination with the aim of growing a well-informed biomedical big data community through collaborative efforts on training and education. Read More

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June 2016
2 Reads

Teachers and Teaching: Speech Production Accommodations Due to Changes in the Acoustic Environment.

Energy Procedia 2015 Nov;78:3102-3107

Physics and Astronomy, Brigham Young University, N283 ESC, Provo, UT 84602.

School teachers have an elevated risk of voice problems due to the vocal demands in the workplace. This manuscript presents the results of three studies investigating teachers' voice use at work. In the first study, 57 teachers were observed for 2 weeks (waking hours) to compare how they used their voice in the school environment and in non-school environments. Read More

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November 2015
3 Reads

The Effect of Nanoparticles and Alternative Monomer on the Exothermic Temperature of PMMA Bone Cement.

Procedia Eng 2015;105:946-952

University of Central Oklahoma, Edmond, Oklahoma 73034, USA.

Poly methyl methacrylate (PMMA) cement produce exothermic reaction during its polymerization process, which damage the surrounding bone tissue during orthopedic surgery. Nanoparticles additives (magnesium oxide, hydroxyapatite, chitosan, barium sulfate and silica) and alternative monomers (glycidyl methacrylate(GMA) tri-methaxysilyl propyl methacrylate (3MPMA)), can be incorporated with the PMMA beads and methyl methacrylate (MMA) monomers, respectively, to reduce the exothermic temperature. A comparative study of the addition of these additives and monomer at different concentration on exothermic temperature of PMMA is not known and significant for designing improved PMMA cement for orthopedic applications. Read More

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January 2015
2 Reads

Haloarchaeal gas vesicle nanoparticles displaying antigens as a novel approach to vaccine development.

Procedia Vaccinol 2015;9:16-23

University of Maryland School of Medicine, USA.

A safe, effective, and inexpensive vaccine against typhoid and other diseases is urgently needed. In order to address this need, we are developing a novel vaccine platform employing buoyant, self-adjuvanting gas vesicle nanoparticles (GVNPs) from the halophilic archaeon sp. NRC-1, bioengineered to display highly conserved antigens. Read More

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January 2015
15 Reads

Comparison of Thresholds for Pulmonary Capillary Hemorrhage Induced by Pulsed-wave and B-mode Ultrasound.

Phys Procedia 2015;70:1087-1090

Department of Surgery, University of Michigan, Ann Arbor MI 48109 USA.

Pulsed ultrasound was found to induce pulmonary capillary hemorrhage (PCH) in mice about 25 years ago but remains a poorly understood risk factor for pulmonary diagnostic ultrasound. In early research using laboratory fixed beam ultrasound, thresholds for PCH had frequency variation from 1-4 MHz similar to the Mechanical Index. In recent research, thresholds for B mode diagnostic ultrasound from 1. Read More

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January 2015

All-Hex Meshing of Multiple-Region Domains without Cleanup.

Procedia Eng 2016 ;163:251-261

Center for Computing Research, Sandia National Laboratories, Albuquerque NM 87185, U.S.A.

In this paper, we present a new algorithm for all-hex meshing of domains with multiple regions without post-processing cleanup. Our method starts with a strongly balanced octree. In contrast to snapping the grid points onto the geometric boundaries, we move points a slight distance away from the common boundaries. Read More

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January 2016
6 Reads

Interoperability: linking design and tolerancing with metrology.

Procedia CIRP 2016 9;43:13-16. Epub 2016 May 9.

National Institute for Standards and Technology, Gaitherburg, MD 20899 USA.

On October 30, 2014 the American National Standards Institute (ANSI) approved QIF v 2.0 (Quality Information Framework, version 2.0) as an American National Standard. Read More

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May 2016
4 Reads

A Hybrid Human-Computer Approach to the Extraction of Scientific Facts from the Literature.

Procedia Comput Sci 2016 1;80:386-397. Epub 2016 Jun 1.

Department of Computer Science, The University of Chicago, Chicago, IL, USA.

A wealth of valuable data is locked within the millions of research articles published each year. Reading and extracting pertinent information from those articles has become an unmanageable task for scientists. This problem hinders scientific progress by making it hard to build on results buried in literature. Read More

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June 2016
3 Reads

An ultrasonic caliper device for measuring acoustic nonlinearity.

Phys Procedia 2016 ;87:93-98

CIMU, Applied Physics Laboratory, University of Washington, 1013 NE 40 Street, Seattle, WA 98105, USA.

In medical and industrial ultrasound, it is often necessary to measure the acoustic properties of a material. A specific medical application requires measurements of sound speed, attenuation, and nonlinearity to characterize livers being evaluated for transplantation. For this application, a transmission-mode caliper device is proposed in which both transmit and receive transducers are directly coupled to a test sample, the propagation distance is measured with an indicator gage, and receive waveforms are recorded for analysis. Read More

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January 2016
6 Reads

Design of HIFU transducers to generate specific nonlinear ultrasound fields.

Phys Procedia 2016 ;87:132-138

CIMU, Applied Physics Laboratory, University of Washington, Seattle, WA.

Various clinical applications of high intensity focused ultrasound (HIFU) have different requirements on the pressure level and degree of nonlinear waveform distortion at the focus. Applications that utilize nonlinear waves with developed shocks are of growing interest, for example, for mechanical disintegration as well as for accelerated thermal ablation of tissue. In this work, an inverse problem of determining transducer parameters to enable formation of shocks with desired amplitude at the focus is solved. Read More

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January 2016
7 Reads

Sodium Content of Foods Contributing to Sodium Intake: Comparison between Selected Foods from the CDC Packaged Food Database and the USDA National Nutrient Database for Standard Reference.

Procedia Food Sci 2015;4:114-124

Division for Heart Disease and Stroke Prevention, Centers for Disease Control and Prevention, Atlanta, GA 30341, USA.

The sodium concentration (mg/100g) for 23 of 125 Sentinel Foods (e.g. white bread) were identified in the 2009 CDC Packaged Food Database (PFD) and compared with data in the USDA's 2013 National Nutrient Database for Standard Reference(SR 26). Read More

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January 2015
4 Reads

EPiK-a Workflow for Electron Tomography in Kepler.

Procedia Comput Sci 2014 ;20:2295-2305

National Center for Microscopy and Imaging Research, University of California, San Diego, La Jolla, CA, USA.

Scientific workflows integrate data and computing interfaces as configurable, semi-automatic graphs to solve a scientific problem. Kepler is such a software system for designing, executing, reusing, evolving, archiving and sharing scientific workflows. Electron tomography (ET) enables high-resolution views of complex cellular structures, such as cytoskeletons, organelles, viruses and chromosomes. Read More

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January 2014
82 Reads

Enabling Smart Manufacturing Research and Development using a Product Lifecycle Test Bed.

Procedia Manuf 2015 21;1:86-97. Epub 2015 Oct 21.

National Institute of Standards and Technology, Gaithersburg, MD, U.S.A.

Smart manufacturing technologies require a cyber-physical infrastructure to collect and analyze data and information across the manufacturing enterprise. This paper describes a concept for a product lifecycle test bed built on a cyber-physical infrastructure that enables smart manufacturing research and development. The test bed consists of a Computer-Aided Technologies (CAx) Lab and a Manufacturing Lab that interface through the product model creating a "digital thread" of information across the product lifecycle. Read More

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October 2015
1 Read

Robust All-quad Meshing of Domains with Connected Regions.

Procedia Eng 2015;124:96-108

Sandia National Laboratories, Albuquerque NM 87185, U.S.A.

In this paper, we present a new algorithm for all-quad meshing of non-convex domains, with connected regions. Our method starts with a strongly balanced quadtree. In contrast to snapping the grid points onto the geometric boundaries, we move points a slight distance away from the common boundaries. Read More

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January 2015
2 Reads

Highly Symmetric and Congruently Tiled Meshes for Shells and Domes.

Procedia Eng 2015;124:213-225

Computational Visualization Center, Department of Computer Science and Institute of Computational Engineering and Sciences, University of Texas at Austin, Austin, TX 78731, USA.

We describe the generation of all possible shell and dome shapes that can be uniquely meshed (tiled) using a single type of mesh face (tile), and following a single meshing (tiling) rule that governs the mesh (tile) arrangement with maximal vertex, edge and face symmetries. Such tiling arrangements or congruently tiled meshed shapes, are frequently found in chemical forms (fullerenes or Bucky balls, crystals, quasi-crystals, virus nano shells or capsids), and synthetic shapes (cages, sports domes, modern architectural facades). Congruently tiled meshes are both aesthetic and complete, as they support maximal mesh symmetries with minimal complexity and possess simple generation rules. Read More

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January 2015
2 Reads

Quality Partitioned Meshing of Multi-Material Objects.

Procedia Eng 2015;124:187-199

Institute of Computational Engineering and Sciences, Computational Visualization Center, University of Texas, Austin, TX 78712.

We present a simple but effective algorithm for generating topologically and geometrically consistent quality triangular surface meshing of compactly packed multiple heterogeneous domains in [Formula: see text]. By compact packing we imply that adjacent homogeneous domains or materials share some 0, 1, and/or 2 dimensional boundary. Such packed multiple material (or multi-material) solids arise naturally from classification/partitioning/segmentation of homogeneous domains in [Formula: see text] into different sub-regions. Read More

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January 2015

Towards Measuring the Food Quality of Grocery Purchases: an Estimation Model of the Healthy Eating Index-2010 Using only Food Item Counts.

Procedia Food Sci 2015;4:148-159. Epub 2015 Jun 26.

Department of Biomedical Informatics, University of Utah School of Medicine, Salt Lake City 84108, Utah, USA.

Measuring the quality of food consumed by individuals or groups in the U.S. is essential to informed public health surveillance efforts and sound nutrition policymaking. Read More

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June 2015
1 Read

Evaluation of a Outer Membrane Vesicle Vaccine in Nonhuman Primates.

Procedia Vaccinol 2014 Jan;8:38-42

Tulane University School of Medicine, New Orleans LA 70112, USA.

()is the causative agent of melioidosis and is endemic in regions of northern Australia and Southeast Asia. is inherently resistant to multiple antibiotics and is considered a potential biological warfare agent by the U.S. Read More

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January 2014
28 Reads

Remediation and Prophylaxis of Anomia in Primary Progressive Aphasia.

Procedia Soc Behav Sci 2013 Oct;94:275-276

Center for Aphasia Research and Rehabilitation, Georgetown University Medical Center.

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October 2013

Analysis of auto-aligned and auto-segmented oral discourse by speakers with aphasia: A preliminary study on the acoustic parameter of duration.

Procedia Soc Behav Sci 2013 Oct;94:71-72

Department of Electronic Engineering, The Chinese University of Hong Kong, Hong Kong SAR.

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October 2013
8 Reads

Methods for calculating dietary energy density in a nationally representative sample.

Procedia Food Sci 2013 ;2:68-74

The Pennsylvania State University, Department of Nutritional Sciences, University Park, PA 16802 USA.

There has been a growing interest in examining dietary energy density (ED, kcal/g) as it relates to various health outcomes. Consuming a diet low in ED has been recommended in the 2010 Dietary Guidelines, as well as by other agencies, as a dietary approach for disease prevention. Translating this recommendation into practice; however, is difficult. Read More

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January 2013
4 Reads

Employment of gestures in spontaneous verbal discourse by speakers with aphasia.

Procedia Soc Behav Sci 2013 Oct;94

Department of Communication Sciences and Disorders, University of Central Florida, Orlando, FL, USA.

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October 2013
1 Read

Progress towards automated Kepler scientific workflows for computer-aided drug discovery and molecular simulations.

Procedia Comput Sci 2014 ;29:1745-1755

Department of Chemistry and Biochemistry, University of California San Diego, 9500 Gilman Drive, MC 0340, La Jolla, CA 92093, USA.

We describe the development of automated workflows that support computed-aided drug discovery (CADD) and molecular dynamics (MD) simulations and are included as part of the National Biomedical Computational Resource (NBCR). The main workflow components include: file-management tasks, ligand force field parameterization, receptor-ligand molecular dynamics (MD) simulations, job submission and monitoring on relevant high-performance computing (HPC) resources, receptor structural clustering, virtual screening (VS), and statistical analyses of the VS results. The workflows aim to standardize simulation and analysis and promote best practices within the molecular simulation and CADD communities. Read More

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January 2014
5 Reads

Workflow as a Service in the Cloud: Architecture and Scheduling Algorithms.

Procedia Comput Sci 2014 ;29:546-556

San Diego Supercomputer Center, UCSD, La Jolla, CA, U.S.A.

With more and more workflow systems adopting cloud as their execution environment, it becomes increasingly challenging on how to efficiently manage various workflows, virtual machines (VMs) and workflow execution on VM instances. To make the system scalable and easy-to-extend, we design a Workflow as a Service (WFaaS) architecture with independent services. A core part of the architecture is how to efficiently respond continuous workflow requests from users and schedule their executions in the cloud. Read More

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January 2014
2 Reads

Using Kepler for Tool Integration in Microarray Analysis Workflows.

Procedia Comput Sci 2014;29:2162-2167

Departments of Pharmacology, University of California, San Diego, La Jolla, CA, USA.

Increasing numbers of genomic technologies are leading to massive amounts of genomic data, all of which requires complex analysis. More and more bioinformatics analysis tools are being developed by scientist to simplify these analyses. However, different pipelines have been developed using different software environments. Read More

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January 2014
1 Read

Effect of fiber patterns on the fracture of implant/cement interfaces.

Procedia Eng 2014;90:32-38

Department of Engineering and Physics, University of Central Oklahoma, Edmond, OK 73034, USA.

Electrospinning is a process by which fibers with micron to nanometer diameters can be obtained from an electrostatically driven jet of polymer solution. These fibers have a high surface area to volume ratio, which have numerous applications in biomedical implants such as total hip implant, dental implant. The present study is based on the hypothesis that the differences of the surface properties at titanium/cement interface due to incorporation of micro and sub-micron diameters fiber directions may have influence on the quality of titanium/cement union. Read More

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January 2014
2 Reads

Adaptive and Unstructured Mesh Cleaving.

Procedia Eng 2014;82:266-278

Scientific Computing and Imaging Institute, Salt Lake City, UT, U.S.A.

We propose a new strategy for boundary conforming meshing that decouples the problem of building tetrahedra of proper size and shape from the problem of conforming to complex, non-manifold boundaries. This approach is motivated by the observation that while several methods exist for adaptive tetrahedral meshing, they typically have difficulty at geometric boundaries. The proposed strategy avoids this conflict by extracting the boundary conforming constraint into a secondary step. Read More

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January 2014
1 Read

Modeling the evolution of gene regulatory networks for spatial patterning in embryo development.

Procedia Comput Sci 2013 ;18

Computer Science and CEWIT, SUNY Stony Brook, Stony Brook, New York, USA; and The Sechenov Institute of Evolutionary Physiology & Biochemistry, St.-Petersburg, Russia.

A central question in evolutionary biology concerns the transition between discrete numbers of units (e.g. vertebrate digits, arthropod segments). Read More

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January 2013

A novel approach to analyze gesture forms and functions in spontaneous oral discourse production of normal speakers.

Procedia Soc Behav Sci 2012 Oct;61:242-243

Department of Communication Sciences and Disorders, University of Central Florida, Orlando, FL, USA.

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October 2012
5 Reads

Using forced alignment for automatic acoustic-phonetic segmentation of aphasic discourse.

Procedia Soc Behav Sci 2012 Oct;61:92-93

University College Cork, Cork, Ireland.

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October 2012

Digital Volume Correlation for Study of the Mechanics of Whole Bones.

Procedia IUTAM 2012 ;4:116-125

Department of Mechanical Engineering, Boston University, Boston, MA 02215, USA.

Full-field measurement of deformation in biological structures such as bones is a promising experimental approach for study of the spatial heterogeneity in mechanical behavior. With the advent of high-resolution, 3-D imaging, digital volume correlation (DVC) allows for the measurement of spatially heterogeneous, 3-D deformation fields throughout entire volumes. For bones such as the vertebra, use of DVC to detect the onset and progression of failure is of direct relevance to the study of osteoporotic fractures. Read More

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January 2012

A systems analysis of irrigation water quality in environmental assessments related to foodborne outbreaks.

Aquat Procedia 2013 ;2(2013):130-137

Centers for Disease Control and Prevention, Atlanta, Georgia, USA.

Irrigation water quality can affect food safety and health and has been identified as a possible source of pathogens in produce linked to disease outbreaks. Many irrigation water sources are subject to contamination from various sources in surrounding watersheds. A systems-based, watershed scale analysis is therefore necessary to comprehensively identify both sources of contamination and the conditions in the environment that facilitated or created that contamination, termed here 'environmental antecedents'. Read More

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January 2013

Evaluating the feasibility of utilizing the Automated Self-administered 24-hour (ASA24) dietary recall in a sample of multiethnic older adults.

Procedia Food Sci 2013 29;2:134-144. Epub 2013 May 29.

University of Hawai'i Cancer Center, Epidemiology Program, Honolulu, HI, 96813, USA.

The ASA24 is a web application which enables the collection of self-administered dietary recalls thus utilizing technology to overcome some of the limitations of traditional assessment methodologies. Older adults, particularly those from certain ethnic groups may have less access to and may be less receptive to technology. This research sought to determine the level of access to the internet as well as evaluate the feasibility of using a web-based alternative dietary data collection method in older, multiethnic adults. Read More

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May 2013
1 Read

An Application of Micro-channel Plate Photomultiplier Tube to Positron Emission Tomography.

Phys Procedia 2012 ;37:1480-1487

Department of Radiology, University of Chicago, Chicago, IL 60637.

We are developing a Time-of-Flight Positron Emission Tomography detector using flat panel micro-channel plate photomultiplier tubes (MCP PMT). The high-speed waveform sampling data acquisition is adopted to exploit the fast time response of MCP PMT efficiently by using transmission-line readout scheme. To demonstrate the feasibility of the proposed detector, prototype detector modules were built using Photonis XP85022 MCP PMT, transmission-line board (TL), and high-speed waveform sampling electronics equipped with DRS4 chips. Read More

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January 2012

Measuring gene expression noise in early Drosophila embryos: nucleus-to-nucleus variability.

Procedia Comput Sci 2012 Jan 2;9:373-382. Epub 2012 Jun 2.

Department of Mathematics and Mechanics, St.-Petersburg State University, St.-Petersburg, Russia.

In recent years the analysis of noise in gene expression has widely attracted the attention of experimentalists and theoreticians. Experimentally, the approaches based on in vivo fluorescent reporters in single cells appear to be straightforward and effective tools for bacteria and yeast. However, transferring these approaches to multicellular organisms presents many methodological problems. Read More

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January 2012
2 Reads

Prototype of Kepler Processing Workflows For Microscopy And Neuroinformatics.

Procedia Comput Sci 2012 ;9:1595-1603

National Center for Microscopy Imaging Research, Basic Science Building 1000 University of California, San Diego 9500 Gilman Drive La Jolla, CA 92093-0608, USA.

We report on progress of employing the Kepler workflow engine to prototype "end-to-end" application integration workflows that concern data coming from microscopes deployed at the National Center for Microscopy Imaging Research (NCMIR). This system is built upon the mature code base of the Cell Centered Database (CCDB) and integrated rule-oriented data system (IRODS) for distributed storage. It provides integration with external projects such as the Whole Brain Catalog (WBC) and Neuroscience Information Framework (NIF), which benefit from NCMIR data. Read More

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January 2012

Implicit methods for efficient musculoskeletal simulation and optimal control.

Procedia IUTAM 2011 Jan;2(2011):297-316

Orchard Kinetics LLC, Cleveland, OH, USA.

The ordinary differential equations for musculoskeletal dynamics are often numerically stiff and highly nonlinear. Consequently, simulations require small time steps, and optimal control problems are slow to solve and have poor convergence. In this paper, we present an implicit formulation of musculoskeletal dynamics, which leads to new numerical methods for simulation and optimal control, with the expectation that we can mitigate some of these problems. Read More

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January 2011
3 Reads

Empirical Behavioral Models to Support Alternative Tools for the Analysis of Mixed-Priority Pedestrian-Vehicle Interaction in a Highway Capacity Context.

Procedia Soc Behav Sci 2011 ;16:653-663

Institute for Transportation Research and Education, Campus Box 8601, Raleigh, NC 27695, USA.

This paper presents behavioral-based models for describing pedestrian gap acceptance at unsignalized crosswalks in a mixed-priority environment, where some drivers yield and some pedestrians cross in gaps. Logistic regression models are developed to predict the probability of pedestrian crossings as a function of vehicle dynamics, pedestrian assertiveness, and other factors. In combination with prior work on probabilistic yielding models, the results can be incorporated in a simulation environment, where they can more fully describe the interaction of these two modes. Read More

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January 2011

GPU-accelerated Chemical Similarity Assessment for Large Scale Databases.

Procedia Comput Sci 2011 14;4:2007-2016. Epub 2011 May 14.

Department of Computer Science, University of Illinois at Chicago ; Department of Bioengineering, University of Illinois at Chicago.

The assessment of chemical similarity between molecules is a basic operation in chemoinformatics, a computational area concerning with the manipulation of chemical structural information. Comparing molecules is the basis for a wide range of applications such as searching in chemical databases, training prediction models for virtual screening or aggregating clusters of similar compounds. However, currently available multimillion databases represent a challenge for conventional chemoinformatics algorithms raising the necessity for faster similarity methods. Read More

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OpenSim: a musculoskeletal modeling and simulation framework for investigations and exchange.

Procedia IUTAM 2011;2:212-232

Bioengineering, Stanford University, Stanford, CA, USA ; Mechanical Engineering, Stanford University, Stanford, CA, USA.

Movement science is driven by observation, but observation alone cannot elucidate principles of human and animal movement. Biomechanical modeling and computer simulation complement observations and inform experimental design. Biological models are complex and specialized software is required for building, validating, and studying them. Read More

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January 2011
7 Reads