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  • Bioinformatics Resources at OSC
    E Stahlberg J Fernando J Doak K Wohlever Cray Users Group Conference Albuquerque NM May 15 2005 Integrating FPGA Technology and Database Management Systems on Solaris Systems D Ryle D Popig E Stahlberg Sun Users Performance Group Conference Arlington VA April 18 2005 Compilation of mRNA Polyadenylation Signals in Arabidopsis Revealed a New Signal Element and Potential Secondary Structures J Loke E Stahlberg D Strenski B Haas P Wood Q Li accepted for publication Plant Physiology January 2005 Storage Sharing and Safeguards Three S s for Knowledge Management Invited Speaker Integrating Knowledge in the Life Science Product Life Cycle virtual conference October 2004 Life Science Research at OSC Proving Ground for Integrated Computational Biology Research and Applications Invited Speaker IDC HPC Users Conference Tuscon AZ September 21 2004 Network Analysis Using Transitive Closure New Methods for Exploring Networks D Dougherty W Sadee E Stahlberg Journal of Statistical Computation and Simulation Submitted for publication June 2004 Comparative Sequence Analysis for SAGE Serial Analysis of Gene Expression using CBL and PCBL Libraries M Gowda G Wang J Doak S Manikantan E Stahlberg Proceedings of the 46th CUG Conference Knoxville Tennessee May 2004 Genome Wide Identification of Arabidopsis Coiled Coil Proteins and Establishment of the ARABI COIL Database A Rose S Manikantan S J Schraegle M A Maloy E A Stahlberg and I Meier Plant Physiology March 2004 Vol 134 pp 927 939 Genome wide Compilation and Probabilistic Prediction of mRNA Polyadenylation Signals in Arabidopsis Using Advanced Searching Technologies Q Li J C H Loke E Stahlberg D Strenski The 45th CUG Conference Columbus Ohio May 2003 Improving performance of multiple sequence alignment analysis in multi client environments U Catalyurek E Stahlberg R Ferreira T Kurc and J Saltz Proceedings of 16th International Parallel and Distributed Processing Symposium IPDPS First Workshop on High

    Original URL path: http://archive.osc.edu/research/bioinformatics/papers.shtml (2013-06-13)
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  • Virtual Temporal Bone Dissection Project
    For additional information please email us here Click here for the Performance Assessment of Mastoidectomy survey

    Original URL path: http://archive.osc.edu/research/Biomed/vtbone/home_page/home.htm (2013-06-13)
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  • Development and Evaluation of Immersive Simulations for use in Response Training for Outbreaks of Infectious Disease
    Events Educators Online OCS Lecture Series Press Releases Headlines Calendar of Events About OSC Media Kit OSC Media Contacts Staff Directory Visit OSC Supercomputing Support Networking Support Biomedical Sciences and Visualization Current Projects Past Projects Symposiums Interface Lab VTbone Site Contact Us Related Links Research at OSC Get an Account Supercomputing BALE Research Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Biomedical Sciences and Visualization Development and Evaluation of Immersive Simulations for use in Response Training for Outbreaks of Infectious Disease Funding Source The Ohio State University Office of Academic Affairs Public Health Preparedness for Infectious Disease PHPID Targeted Investment in Excellence TIE Principal Investigator J Mac Crawford RN MS PhD Division of Environmental Health Sciences The Ohio State University College of Public Health Co Investigator Don Stredney OSC Duration 01 01 2008 12 31 2009 Abstract This collaborative project includes The College of Public Health the Ohio Center for Public Health Preparedness OCPHP the Ohio Supercomputer Center OSC the College of Veterinary Medicine and the College of Medicine at The Ohio State University The effort includes the creation of a computer simulation based incident management training simulation laboratory for public health practitioners Using a combination of remote electronic content delivery and an exercise gaming scenario OCPHP will use a multimedia web based module to train practitioners to develop plans of action to respond to simulated infectious disease incidents Trainees are randomized upon study entry to receive in addition to the multimedia training either a gaming environment exercise simulation or a standard PowerPoint based tabletop exercise Six month follow up of satisfaction with the training and knowledge attitudes and beliefs about the content will be compared to baseline across the two exercise groups Additionally 14 subjects seven from each exercise modality will be monitored for signs of physiologic

    Original URL path: http://archive.osc.edu/research/Biomed/projects/games/index.shtml (2013-06-13)
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  • The Integration of Simulation Technologies in Veterinary Medicine for Anatomical Review and Procedural Training
    Support Biomedical Sciences and Visualization Current Projects Past Projects Symposiums Interface Lab VTbone Site Contact Us Related Links Research at OSC Get an Account Supercomputing BALE Research Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Project Software The following will provide dissemination for software and data sets from the ARDF project VolEditor is a simple paint tool for windows that makes segmenting data simple VolEditor helps to remove regions that are not required in the data and to segment out different structures VolEditor can also be used as a teaching tool having students learn anatomy by locating and painting structures from a list VolEditor Software right click and choose Save link as VolEditor User s Guide VolEditor Sample Data Sets Biomedical Sciences and Visualization The Integration of Simulation Technologies in Veterinary Medicine for Anatomical Review and Procedural Training Funding Source The Alternatives Research Development Foundation ARDF Principle Investigator Mary Ann McLoughlin D V M Department of Clinical Services The Ohio State University College of Veterinary Medicine Co Investigator Don Stredney OSC Duration 10 1 07 9 30 08 Abstract Societal pressures for the humane treatment of animals mandate that veterinary schools continually explore new methods for teaching surgical techniques However with the continued reduction in animal use the question arises as to whether students gain enough experience and have the requisite proficiency to perform both simple and complex surgical techniques upon graduation This effort involves the transfer and the study of the efficacy of emerging low cost simulation technologies to teach regional anatomy and procedural surgical techniques This project supports the effort to reduce the need for animals in teaching by creating digital models of regional anatomy through non invasive in vivo imaging acquisition We will promote the adoption and adaptation of simulation technologies for use in the

    Original URL path: http://archive.osc.edu/research/Biomed/projects/animals/index.shtml (2013-06-13)
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  • HHS-OBOR: Cluster Computing Capacity
    Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Biomedical Sciences and Visualization Research HHS OBOR Cluster Computing Capacity Funding Source Ohio Board of Regents Principle Investigator Dennis Sessanna Ohio Supercomputer Center Co Investigators Don Stredney and Ashok Krishnamurthy Ph D Ohio Supercomputer Center Abstract The gaming industry with its consumer demand for realistic smooth 3 D images is without a doubt advancing the graphics hardware market exponentially In recent years commodity based graphics chips or graphical processing units GPUs have become more programmable and easier to use for general purpose applications GPGPU Researchers are starting to use these single process multiple data parallel processors to accelerate image processing algorithms and line of sight calculations in addition to real time deformation calculations Understanding that demand for this technology will only continue to grow the Ohio Supercomputer Center installed a GPGPU Visualization cluster in 2007 The system s configuration contains 36 AMD Opteron 2 6GHz dual core CPUs 36 NVIDA Quadro FX 5600 GPUs Infiniband Dual Port HCA card 144 gigabytes of RAM 13 500 gigabytes SATA hard disk Each Quadro FX 5600 card has 1 5 gigabytes of onboard high speed memory and is capable of 330 peak gigaflops Combined the 36 GPUs of the cluster are capable of 11 800 peak gigaflops and most importantly are fully programmable This level of memory speed and programmability is a necessity for realistic graphics and a boon for researchers wanting to use GPGPU for their data sets Our goal is to create an environment for Ohio s researchers to tap the latest graphics technology whether it s for GPGPU computation or visualization said Dennis Sessanna Software Engineer Virtual Systems Ohio Supercomputer Center In addition to the hardware the cluster is running GPU accelerated application program interfaces such as CUDA Cg and

    Original URL path: http://archive.osc.edu/research/Biomed/projects/ccc/index.shtml (2013-06-13)
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  • Simulating Skin Biopsies
    and Events Educators Online OCS Lecture Series Press Releases Headlines Calendar of Events About OSC Media Kit OSC Media Contacts Staff Directory Visit OSC Supercomputing Support Networking Support Biomedical Sciences and Visualization Current Projects Past Projects Symposiums Interface Lab VTbone Site Contact Us Related Links Research at OSC Get an Account Supercomputing BALE Research Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Biomedical Sciences and Visualization Simulating Skin Biopsies Continuing Medical Education For Physicians Utilizing the OSCnet Funding Source This research is funded by the Ohio Board of Regents and the Office for the Advancement of Telehealth of the Health Resource and Services Administration Principal Investigator Don Stredney OSC In collaboration with CMEOhio com Duration 6 1 06 5 31 07 Movie skinbiopsy wmv right click and choose Save link as to download movie onto your computer Overview This is a collaborative project by the seven schools of medicine in Ohio Case Western Reserve University Cleveland University of Cincinnati Northeastern Ohio Universities College of Medicine Akron Medical University of Ohio Toledo Ohio University Athens Wright State University Dayton and The Ohio State University Columbus Continuing medical education CME is a critical component for physicians in practice to enhance and improve both patient care and patient outcomes The physician of the 21st century is prepared and responsive to seeking CME and category 1 credits for licensure and credentialing as well as improved patient care through Internet distribution web based education Each year the percentage of physicians who use the Internet for current and accurate clinical information continues to increase This effort is a second phase involving the development and dissemination of a simulation environment for teaching physicians to perform a simple punch skin biopsy Through computer modeling the simulation includes emulating various lesions and skin thicknesses The interface includes

    Original URL path: http://archive.osc.edu/research/Biomed/projects/skin/index.shtml (2013-06-13)
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  • Evaluating Elicited Anxiety in a Simulated Environment
    Biomedical Sciences and Visualization Current Projects Past Projects Symposiums Interface Lab VTbone Site Contact Us Related Links Research at OSC Get an Account Supercomputing BALE Research Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Biomedical Sciences and Visualization Evaluating Elicited Anxiety in a Simulated Environment Funding Source National Institute on Health and Safety The Great Lakes Center for Agricultural Safety and Health Principle Investigator Don Stredney Duration 5 1 05 4 30 06 Overview Unintentional occupational injuries remain problematic This applied research aims to harness emerging technologies to simulate a common occupational setting that provides the potential for experiencing acute traumatic injuries The investigators will adapt current technologies to simulate an environment with a power take off PTO an indispensable tool found on farms and other work environments that transfers power from a common tractor to be redirected to drive various implements The PTO has continuously proven to be problematic in providing acute unintentional injuries through entrapment or entanglement This preliminary research will extend our current work to this specific scenario the PTO environment which is exemplary of high risk agricultural work settings The pilot study will help delineate advantages and limitations of our approach and the data

    Original URL path: http://archive.osc.edu/research/Biomed/projects/pto_study/index.shtml (2013-06-13)
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  • The Biomedical Structural, Functional, and Molecular Imaging Enterprise
    OARnet Get an Account Renew Project Bioinformatics Biomedical Sciences and Visualization Blue Collar Computing Computational Science Engineering Research Applications Networking Research Systems Research Research Report Ralph Regula School Computational Chemistry Grid Summer Institute Young Women s Summer Institute HPC and Software Training Current Training and Events Educators Online OCS Lecture Series Press Releases Headlines Calendar of Events About OSC Media Kit OSC Media Contacts Staff Directory Visit OSC Supercomputing Support Networking Support Biomedical Sciences and Visualization Current Projects Past Projects Symposiums Interface Lab VTbone Site Contact Us Related Links Research at OSC Get an Account Supercomputing BALE Research Reports 2009 Research Highlights 2008 Research Report 2007 Research Report Biomedical Sciences and Visualization The Biomedical Structural Functional and Molecular Imaging Enterprise Funding Source Biomedical Research and Technology Transfer BRTT Fund Principal Investigator Michael Knopp M D Ph D The Ohio State University Duration 10 1 03 9 30 06 Description The multi institutional project seeks to advance existing imaging resources to focus on mobile facilities remote access and imaging associated with biohazards Our specific focus comprises the user interface interactive visualization and network collaboration services required for the project Image s Figure 1 Images of 8 Tesla in vivo acquisitions of

    Original URL path: http://archive.osc.edu/research/Biomed/projects/bsfmie/index.shtml (2013-06-13)
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