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Outside Pubs Referencing SCIRun or BioPSE

Last update on 5/1/2014

NOTE: The following references turned up as hits while searching relevant terms according to a search engine, however it was not always possible to verify the validity of each reference. Anything potentially relevant was included. Please help improve the quality of this list by removing references you are able to determine are not relevant. Thanks, Erik.


Paul Bassan, Joe Mellor, Jonathan Shapiro, Kaye J Williams, Michael P. Lisanti, Peter Gardner.
"Transmission FT-IR Chemical Imaging on Glass Substrates: Applications in Infrared Spectral Histopathology"
Anal. Chem., 86 (3), pp 1648–1653, 2014
DOI: 10.1021/ac403412n

Jian Chen, Haipeng Cai, Alexander P. Auchus, David H. Laidlaw
"Gryphon: A ‘Little' Domain-Specific Programming Language for Diffusion MRI Visualizations"
Handbook of Human Centric Visualization, Part I, pp 41-61, 2014.

Andrew W. L. Dickinson, Purang Abolmaesumi, David G. Gobbi, Parvin Mousavi
"SimITK: Visual Programming of the ITK Image-Processing Library within Simulink"
Journal of Digital Imaging, January 2014.
DOI: 10.1007/s10278-013-9667-7

Christian Engwer, Markus Knappitsch, Christina Surulescu
"A multiscale model for glioma spread including cell-tissue interactions and proliferation" April 7, 2014.
Institute for Computational and Applied Mathematics, University of Münster, Germany.

Firlik, Andrew D., Gliner, Bradford Evan, Sheffirld, Douglas W., Sloan, Leif R.
"System for patent interactive neural stimulation with robotic facilitation of limb movement"
United States Patent 8706241, 2014

Jannaina F. Jorge, Andressa B. V. Costa, Jorge L. N. Rodrigues, Evelyne S. Girão, Roberta S. S. Luiz, Anastácio Q. Sousa, Sean R. Moore, Dalgimar B. Menezes and Terezinha M. J. S. Leitão
"Salmonella typhi Liver Abscess Overlying a Metastatic Melanoma"
Published online March 3, 2014 , Am J Trop Med Hyg 2014. Vol. 9, No. 4, pp. 716--718.
doi: 10.4269/ajtmh.13-0573

Sumientra M. Rampersad, Arno M. Janssen, Felix Lucka, Umit Aydin, Benjamin Lanfer, Seok Lew, Carsten H. Wolters, Dick F. Stegeman, Thom F. Oostendorp
"Simulating transcranial direct current stimulation with a detailed anisotropic human head model"

Robert M. G. Reinhart and Geoffrey F. Woodman
"Causal Control of Medial–Frontal Cortex Governs Electrophysiological and Behavioral Indices of Performance Monitoring and Learning"
The Journal of Neuroscience, 19 March 2014, 34(12): pp. 4214-4227
doi: 10.1523/JNEUROSCI.5421-13.2014

Virginia W. Ross, Miriam E. Leeser
"GPGPU Computing for Cloud Auditing"
High Performance Cloud Auditing and Applications, Part III, pp 259-282, 2014
DOI: 10.1007/978-1-4614-3296-8_10

Dennis Q. Truonga, Mathias Hübera, Xihe Xiea, Abhishek Dattab, Asif Rahmana, Lucas C. Parraa, Jacek P. Dmochowskia, Marom Biksona
"Clinician Accessible Tools for GUI Computational Models of Transcranial Electrical Stimulation: BONSAI and SPHERES"
Brain Stimulation, (in press) 2014.
DOI: 10.1016/j.brs.2014.03.009

Vasquez, Sergio, Shah, Neha, Weinstein, David
"Methods for Evaluating Quantifying Fibrosis in Lung Tissue"
United States Patent Application 20140065663, March 06, 2014

S Wagner, S M Rampersad, Ü Aydin, J Vorwerk, T F Oostendorp, T Neuling, C S Herrmann, D F Stegeman, C H Wolters
"Investigation of tDCS volume conduction effects in a highly realistic head model"
Journal of Neural Engineering Volume 11 Number 1, 2014
DOI: 10.1088/1741-2560/11/1/016002

Ming Wang, Jie-Qing Feng, Wei Chen
"Special Section on CAD/Graphics 2013: Efficient boundary surface reconstruction from heterogeneous volumetric data via tri-prism decomposition"
Journal of Computers and Graphics, Volume 38, Pages 212-221, February, 2014

Ming Wang, Jie-Qing Feng, Wei Chen
"Efficient boundary surface reconstruction from heterogeneous volumetric data via tri-prism decomposition"
Computers & Graphics, Volume 38, Pages 212–221, February 2014
DOI: 10.1016/j.cag.2013.10.034

Lawrence Yao, Fethi A. Rabhi
"Building architectures for data-intensive science using the ADAGE framework"
Concurrency and Computation: Practice and Experience, Apr. 2014
DOI: 10.1002/cpe.3280


Cluitmans, M.J.M., Bonizzi, P. ; Karel, J.M.H. ; Volders, P.G.A. ; Peeters, R.L.M. ; Westra, R.L.
"Inverse reconstruction of epicardial potentials improved by vectorcardiography and realistic potentials"
Computing in Cardiology Conference (CinC), pp. 369--372 2013

Dorier, M., Sisneros, R. ; Peterka, T. ; Antoniu, G. ; Semeraro, D.
"Damaris/Viz: A nonintrusive, adaptable and user-friendly in situ visualization framework"
 2013 IEEE Symposium on Large-Scale Data Analysis and Visualization (LDAV), pp. 67-75, 13-14 Oct. 2013  

Matthieu Dorier, Roberto R. Sisneros, Tom Peterka, Gabriel Antoniu, Dave B. Semeraro.
"A Nonintrusive, Adaptable and User-Friendly In Situ Visualization Framework"
hal-00831265, version 1. N° RR-8314 (2013) HAL-Inria Archive.

Ian Gorton, Yan Liu, Carina Lansing, Todd Elsethagen, Kerstin Kleese van Dam
"Build less code deliver more science: an experience report on composing scientific environments using component-based and commodity software platforms"
CBSE '13 Proceedings of the 16th International ACM Sigsoft symposium on Component-based software engineering, Pages 159-168, 2013.
DOI: 10.1145/2465449.2465460

Benjamin Lanfer, Christian Röer, Michael Scherg, Stefan Rampp, Christoph Kellinghaus, Carsten Wolters
"Influence of a Silastic ECoG Grid on EEG/ECoG Based Source Analysis"
Brain Topography, Volume 26, Issue 2, pp 212-228, April 2013
DOI: 10.1007/s10548-012-0251-0

Mcintyre, Cameron C., Butson, Christopher R., Hall, John D., Henderson, Jaimie M.
"Method and device for displaying predicted volume of influence with patient-specific atlas of neural tissue"
United States Patent 8379952, Published 02/19/2013.

Sebastian Eichelbaum, Mario Hlawitschka, Gerik Scheuermann
"Openwalnut: An Open-Source Tool for Visualization of Medical and Bio-Signal Data"
Biomedical Engineering / Biomedizinische Technik. ISSN (Online) 1862-278X, ISSN (Print) 0013-5585, DOI: 10.1515/bmt-2013-4183, September 2013

Jovana Kneževic', Ralf-Peter Mundani, Ernst Rank
"A High-Performance Interactive Computing Framework for Engineering Applications"
Advanced Computing, Lecture Notes in Computational Science and Engineering Volume 93, pp 177-199, 2013.
DOI: 10.1007/978-3-642-38762-3_9

G.S. McNunna, K.M. Bryden.
"A Proposed Implementation of Tarjan's Algorithm for Scheduling the Solution Sequence of Systems of Federated Models"
Procedia Computer Science, Complex Adaptive Systems, Vol. 20, pp. 223--228, 2013

Mostafa Herajy.
"Computational steering of multi-scale biochemical networks" 2013.

A M Janssen, S M Rampersad, F Lucka, B Lanfer, S Lew, Ü Aydin, C H Wolters, D F Stegeman, T F Oostendorp.
"The influence of sulcus width on simulated electric fields induced by transcranial magnetic stimulation"
Physics in Medicine and Biology Volume 58 Number 14, 2013.

Moreland, K., "A Survey of Visualization Pipelines," Visualization and Computer Graphics, IEEE Transactions on , vol.19, no.3, pp.367,378, March 2013
doi: 10.1109/TVCG.2012.133

D.J. Muth Jr., K.M. Bryden.
"An integrated model for assessment of sustainable agricultural residue removal limits for bioenergy systems"
Environmental Modelling & Software, Volume 39, January 2013, Pages 50–69.
DOI: 10.1016/j.envsoft.2012.04.006

Sonoko Narisawa, Manisha C. Yadav, José Luis Millán.
"In vivo overexpression of tissue-nonspecific alkaline phosphatase increases skeletal mineralization and affects the phosphorylation status of osteopontin" In Journal of Bone and Mineral Research, 2013.
DOI: 10.1002/jbmr.1901

Marco Nolden, Sascha Zelzer, Alexander Seitel, Diana Wald, Michael Müller, Alfred M. Franz, Daniel Maleike, Markus Fangerau, Matthias Baumhauer, Lena Maier-Hein, Klaus H. Maier-Hein, Hans-Peter Meinzer, Ivo Wolf.
"The Medical Imaging Interaction Toolkit: challenges and advances"
International Journal of Computer Assisted Radiology and Surgery, July 2013, Volume 8, Issue 4, pp 607-620.

Jeonghyung Park, Suzanne M. Shontz, Corina S. Drapaca.
"A Combined Level Set/Mesh Warping Algorithm for Tracking Brain and Cerebrospinal Fluid Evolution in Hydrocephalic Patients"
Image-Based Geometric Modeling and Mesh Generation, Lecture Notes in Computational Vision and Biomechanics Volume 3, pp 107-141, 2013.
DOI: 10.1007/978-94-007-4255-0_7

Yagna Pathak, Brian H. Kopell, Aniko Szabo, Charles Rainey, Harold Harsch, Christopher R. Butson
"The Role of Electrode Location and Stimulation Polarity in Patient Response to Cortical Stimulation for Major Depressive Disorder"
Brain Stimulation, Volume 6, Issue 3, Pages 254–260, May 2013.
DOI: 10.1016/j.brs.2012.07.001

B. Patzák, D. Rypl, J. Kruis
"MuPIF – A distributed multi-physics integration tool"
Advances in Engineering Software, CIVIL-COMP: Parallel, Distributed, Grid and Cloud Computing
Volumes 60–61, June–July 2013, Pages 89–97
DOI: 10.1016/j.advengsoft.2012.09.005

Scott D. Peckham, Eric W.H. Hutton, Boyana Norris
"A component-based approach to integrated modeling in the geosciences: The design of CSDMS"
Computers & Geosciences, Modeling for Environmental Change, Volume 53, Pages 3–12, April 2013.
DOI: 10.1016/j.cageo.2012.04.002

Schindler, Benjamin; Waser, Jürgen; Ribic(ic', Hrvoje; Fuchs, Raphael; Peikert, Ronald, "Multiverse Data-Flow Control," Visualization and Computer Graphics, IEEE Transactions on , vol.19, no.6, pp.1005,1019, June 2013
doi: 10.1109/TVCG.2012.296

T. Schultz, G.L. Kindlmann.
"Open-Box Spectral Clustering: Applications to Medical Image Analysis"
Visualization and Computer Graphics, IEEE Transactions on  (Volume:19 ,  Issue: 12, pp. 2100--2108 ) Dec. 2013.
DOI: 10.1109/TVCG.2013.181

Benjamin Sloan, Doug McCorkle, Kenneth Bryden.
"An Overview of Computational Environments for Engineering" 51st AIAA Aerospace Sciences Meeting including the New Horizons Forum and Aerospace Exposition, Publication Date: 07 January 2013 - 10 January 2013
DOI: 10.2514/6.2013-285

Wessel, C. ; Schnabel, J.A. ; Brady, M.
"Realistic biomechanical model of a cancerous breast for the registration of prone to supine deformations"
Engineering in Medicine and Biology Society (EMBC), 2013 35th Annual International Conference of the IEEE, pp. 7249--7252, 2013.

Yucheng Yao, Jiayi Yao, Melina Radparvar, Ana M. Blazquez-Medela, Pierre J. Guihard, Medet Jumabay, Kristina I. Boström
"Reducing Jagged 1 and 2 levels prevents cerebral arteriovenous malformations in matrix Gla protein deficiency"
PNAS, vol. 110 no. 47, November 19, 2013.
DOI: 10.1073/pnas.1310905110

Johnny Y. Zhang, Grand Roman Joldes, Adam Wittek, Karol Miller.
"Patient-specific computational biomechanics of the brain without segmentation and meshing"
International Journal for Numerical Methods in Biomedical Engineering, Special Issue: Patient Specific Modelling
Volume 29, Issue 2, pages 293–308, February 2013
DOI: 10.1002/cnm.2507

Zulkernine, F.; Martin, P. ; Ying Zou ; Bauer, M. ; Gwadry-Sridhar, F. ; Aboulnaga, A.
"Towards Cloud-Based Analytics-as-a-Service (CLAaaS) for Big Data Analytics in the Cloud"
2013 IEEE International Congress on Big Data (BigData Congress), pp. 62--69, June 27 2013-July 2 2013.
DOI: 10.1109/BigData.Congress.2013.18


Asma Al-Saidi, David W. Walker, Omer F. Rana.
"On-demand transmission model for remote visualization using image-based rendering"
Concurrency and Computation: Practice and Experience, Volume 24, Issue 18, pages 2328–-2345, 25 December 2012.
DOI: 10.1002/cpe.2820

Kola Ayanlowo, O. Shoewu, Segun O. Olatinwo, Tobi Samuel Fadiji, Segun Adeyanju.
"Conceptual Design and Implementation of a Cloud Computing Platform Paradigm",
Computer Engineering and Intelligent Systems, Vol. 3, No. 12, 2012

J.P. Barnesa, P.R. Johnstona,
How ischaemic region shape affects ST potentials in models of cardiac tissue
Mathematical Biosciences, Volume 239, Issue 2, October 2012, Pages 213–221

Michael H. Bartl, Jeremy W. Galusha, Matthew R. Jorgensen.
"Oxide-Based Photonic Crystals from Biological Templates"
Functional Metal Oxide Nanostructures, Springer Series in Materials Science Volume 149, 2012, pp 175-207
DOI: 10.1007/978-1-4419-9931-3_9

Bennett, Janine C.; Abbasi, Hasan; Bremer, Peer-Timo; Grout, Ray; Gyulassy, Attila; Jin, Tong; Klasky, Scott; Kolla, Hemanth; Parashar, Manish; Pascucci, Valerio; Pebay, Philippe; Thompson, David; Yu, Hongfeng; Zhang, Fan; Chen, Jacqueline, "Combining in-situ and in-transit processing to enable extreme-scale scientific analysis," High Performance Computing, Networking, Storage and Analysis (SC), 2012 International Conference for , vol., no., pp.1,9, 10-16 Nov. 2012
doi: 10.1109/SC.2012.31

Rebecca A.B. Burton, Jürgen E. Schneider, Martin J. Bishop, Patrick W. Hales, Christian Bollensdorff, Matthew D. Robson, Kelvin C.K. Wong, John Morris, T. Alexander Quinn, Peter Kohl.
"Microscopic magnetic resonance imaging reveals high prevalence of third coronary artery in human and rabbit heart"
Europace (2012) 14 (suppl 5): v73-v81.
DOI: 10.1093/europace/eus276

Ashutosh Chaturvedi, Thomas J. Foutz, Cameron C. McIntyre.
"Current steering to activate targeted neural pathways during deep brain stimulation of the subthalamic region"
In Brain Stimulation, Volume 5, Issue 3, July 2012, Pages 369–377
DOI: 10.1016/j.brs.2011.05.002

T. Chernenko, R. R. Sawant, M. Miljkovic, L. Quintero, M. Diem, and V. Torchilin
"Raman Microscopy for Noninvasive Imaging of Pharmaceutical Nanocarriers: Intracellular Distribution of Cationic Liposomes of Different Composition"
Molecular Pharmaceutics, 9 (4), 930-936, 2012
DOI: 10.1021/mp200519y

Cluitmans, M.J.M., Peeters, R.L.M., Volders, P.G.A.; Westra, R.L., "Realistic training data improve noninvasive reconstruction of heart-surface potentials," Engineering in Medicine and Biology Society (EMBC), 2012 Annual International Conference of the IEEE , vol., no., pp.6373,6376, Aug. 28 2012-Sept. 1 2012
doi: 10.1109/EMBC.2012.6347452

Ben Donlon, Douglas Veale, Patrick Brennan, Robert Gibney, Hamish Carr, Louise Rainford, ChinTeck Ng, Eliza Pontifex, Jonathan McNulty and Oliver FitzGerald, et al.
MRI-Based Visualisation and Quantification of Rheumatoid and Psoriatic Arthritis of the Knee
Visualization in Medicine and Life Sciences II
Mathematics and Visualization, 2012, Part I, 45-59, DOI: 10.1007/978-3-642-21608-4_3

Thomas GW Epperly, Gary Kumfert, Tamara Dahlgren, Dietmar Ebner, Jim Leek, Adrian Prantl, Scott Kohn.
"High-performance language interoperability for scientific computing through Babel"
International Journal of High Performance Computing Applications August 2012 vol. 26 no. 3 260-274.
DOI: 10.1177/1094342011414036

Céline Fouard, Aurélien Deram, Yannick Keraval, Emmanuel Promayon.
"CamiTK: A Modular Framework Integrating Visualization, Image Processing and Biomechanical Modeling"
Soft Tissue Biomechanical Modeling for Computer Assisted Surgery
Studies in Mechanobiology, Tissue Engineering and Biomaterials Volume 11, 2012, pp 323-354

Gliner, Bradford Evan; Balzer, Jeffrey; Firlik, Andrew D.
"Systems and methods for automatically optimizing stimulus parameters and electrode configurations for neuro-stimulators", United States Patent 8195300. 2012

Grelck, C.; Julku, J.; Penczek, F., "Distributed S-Net: Cluster and Grid Computing without the Hassle," Cluster, Cloud and Grid Computing (CCGrid), 2012 12th IEEE/ACM International Symposium on , vol., no., pp.410,418, 13-16 May 2012
doi: 10.1109/CCGrid.2012.140

Pilsung Kang, Naresh K.C. Selvarasu, Naren Ramakrishnan, Calvin J. Ribbens, Danesh K. Tafti, Yang Cao, Srinidhi Varadarajan.
"Implementing modular adaptation of scientific software"
Journal of Computational Science, Volume 3, Issues 1–2, January–March 2012, Pages 28–45.
DOI: 10.1016/j.jocs.2012.01.007

Karl Krissian, Francisco Santana-Jorge, Daniel Santana-Cedrés, Carlos Falcón-Torres, Sara Arencibia, Sara Illera, Agustín Trujillo, Claire Chalopin, Luis Alvarez.
"AMILab Software: Medical Image Analysis, Processing and Visualization" In Book - Studies in Health Technology and Informatics, Volume 173: Medicine Meets Virtual Reality 19, Copywrite 2012
DOI: 10.3233/978-1-61499-022-2-233

Jean-Denis Lesage, Bruno Raffin
"A hierarchical component model for large parallel interactive applications"
In The Journal of Supercomputing, Volume 60, Issue 3, pp 389-409, June 2012
DOI: 10.1007/s11227-008-0228-7

Mengfei Li, Ruofeng Tong
"All-hexahedral mesh generation via inside-out advancing front based on harmonic fields"
The Visual Computer, June 2012, Volume 28, Issue 6-8, pp 839-847
DOI: 10.1007/s00371-012-0707-y

Shu Meng, Jichao Zhao, Burton, B.M., Lever, N.A., LeGrice, I.J., Smaill, B.H., "Accurate endocardial activation representation of atria by noncontact mapping," Computing in Cardiology (CinC), 2012 , vol., no., pp.709,712, 9-12 Sept. 2012

Nihad Mešanovic' ; Elnur Smajic' ; Mislav Grgic',
Programi i metode za rac(unalom potpomognuto dijagnosticiranje u kardiologiji.
Cardiologia Croatica, Vol.7 No.5-6 Lipanj 2012.

David Jon Muth Jr.
"An investigation of sustainable agricultural residue availability for energy applications"
Iowa State University, Ph.D. Thesis in Mechanical Engineering, 2012.

Navratil, P.A.; Barth, W.L.; Childs, H., "Virtual rheoscopic fluids for dense, large-scale fluid flow visualizations," Large Data Analysis and Visualization (LDAV), 2012 IEEE Symposium on , vol., no., pp.79,84, 14-15 Oct. 2012
doi: 10.1109/LDAV.2012.6378979

T. Neuling, S. Rach, S. Wagner, C.H. Wolters, C.S. Herrmann
Good vibrations: Oscillatory phase shapes perception
NeuroImage, Volume 63, Issue 2, 1 November 2012, Pages 771–778

Toralf Neuling, Sven Wagner, Carsten H. Wolters, Tino Zaehle, Christoph S. Herrmann.
"Finite-Element Model Predicts Current Density Distribution for Clinical Applications of tDCS and tACS"
Front Psychiatry. 2012; 3: 83.
Published online 2012 September 24.
DOI: 10.3389/fpsyt.2012.00083

Okamoto, S.; Hoang, R.V.; Dascalu, S.M.; Harris, F.C.; Belkhatir, N., "SUNPRISM: An approach and software tools for collaborative climate change research," Collaboration Technologies and Systems (CTS), 2012 International Conference on , pp.583,590, 21-25 May 2012
doi: 10.1109/CTS.2012.6261109

Yagna Pathak, Brian H. Kopell, Aniko Szabob, Charles Rainey, Harold Harsch, Christopher R. Butson
The role of electrode location and stimulation polarity in patient response to cortical stimulation for major depressive disorder
Brain Stimulation
Available online 13 July 2012

B. Patzák, D. Rypl, J. Kruis.
"MuPIF – A distributed multi-physics integration tool"
Advances in Engineering Software, Available online 3 November 2012
DOI: 10.1016/j.advengsoft.2012.09.005

Scott D. Peckham, Eric W.H. Hutton, Boyana Norris.
"A component-based approach to integrated modeling in the geosciences: The design of CSDMS"
Computers & Geosciences, Volume 53, April 2013, Pages 3–12.
DOI: 10.1016/j.cageo.2012.04.002

R. Pérez-Pérez, B.M. Benito, F.J. Bonet.
"ModeleR: An enviromental model repository as knowledge base for experts"
Expert Systems with Applications, Volume 39, Issue 9, July 2012, Pages 8396–8411
DOI: 10.1016/j.eswa.2012.01.180

Gabriel J. Pérez-Irizarry ; Francisco De La Cruz-Sanchez ; Brian A. Landrón-Rivera ; Nayda G. Santiago ; Miguel Velez-Reyes
Developing a portable GPU library for hyperspectral image processing
SPIE Digital Library, 2012

S Pursiainen, F. Lucka, C H Wolters.
"Complete electrode model in EEG: relationship and differences to the point electrode model"
Physics in Medicine and Biology, Volume 57, Number 4, 2012.
DOI: 10.1088/0031-9155/57/4/999

Ismael H. F. dos Santos, Luciano P. Soares, Felipe Carvalho, Alberto Raposo.
"A Collaborative Virtual Reality Oil & Gas Workflow" The International Journal of Virtual Reality, Vol. 11, No. 1, pp. 1-13, 2012.

Bartosz Sawicki, Bartosz Chaber, Jacek Starzynski, Robert Szmurlo, (2012) "Internet application concept to trivialize EMF biomedical computing", COMPEL: The International Journal for Computation and Mathematics in Electrical and Electronic Engineering, Vol. 31 Iss: 4, pp.1190 - 1197, 2012.
DOI: 10.1108/03321641211227456

Jérome Soumagne.
"An In-situ Visualization Approach for Parallel Coupling and Steering of Simulations through Distributed Shared Memory Files", Ph.D. Thesis, Université Sciences et Technologies - Bordeaux I (14/12/2012).

J. Joshua Thomas, Ahamad Tajudin Khader, Bahari Belaton, Choy Chee Ken  
"Integrated Problem Solving Steering Framework on Clash Reconciliation Strategies for University Examination Timetabling Problem" In Neural Information Processing, Lecture Notes in Computer Science Volume 7666, 2012, pp 297-304
DOI: 10.1007/978-3-642-34478-7_37

Dennis Tretter. "Workflow engines in the different areas of application" 2012.

Ming Wang, Jie-Qing Feng
"2D-Manifold Boundary Surfaces Extraction from Heterogeneous Object on GPU",
Journal of Computer Science and Technology
July 2012, Volume 27, Issue 4, pp 862-871
DOI: 10.1007/s11390-012-1270-8

(Russian citation) 2012


Josef Barnes, Peter Johnston
The effect of ischaemic region shape on epicardial potential distributions in transient models of cardiac tissue
ANZIAM Journal, Vol. 53, 2011

T. Critchlow, G. Chin
Supercomputing and Scientific Workflows Gaps and Requirements
Services (SERVICES), 2011 IEEE World Congress on, July 4-9 2011

Fabian, N. ; Moreland, K. ;  Thompson, D. ;  Bauer, A.C. ;  Marion, P. ;  Gevecik, B. ;  Rasquin, M. ;  Jansen, K.E.
The ParaView Coprocessing Library: A scalable, general purpose in situ visualization library
Large Data Analysis and Visualization (LDAV), 2011 IEEE Symposium on, Page(s): 89 - 96, 2011.

James E. Holl, Yao-Chou Cheng, Mark W. Dobin, John F. Schuette, Chul-Sung Kim, Eric A. Schmidtke
Functional-Based Knowledge Analysis In A 2D and 3D Visual Environment
US Patent Application - US 2011/0044532 A1
Feb. 24, 2011

Thomas Jochmann, Daniel Güllmar, Jens Haueisen, Jürgen R. Reichenbach
Influence of tissue conductivity changes on the EEG signal in the human brain – A simulation study
Zeitschrift für Medizinische Physik
Volume 21, Issue 2, May 2011, Pages 102–112

Wael Khemiri
Data-intensive interactive workflows for visual analytics
tel-00659227, version 1
Université Paris Sud - Paris XI (12/12/2011)

Guangxia Li, Andrew C. Bragdon, Zhigeng Pan, Mingmin Zhang
VisBubbles: A Workflow-Driven Framework for Scientific Data Analysis of Time-Varying Biological Datasets (SAP-0281)
SA '11 SIGGRAPH Asia 2011 Posters, Article No. 27 2011
ISBN: 978-1-4503-1137-3 doi>10.1145/2073304.2073333

Mikko Lilja
An enhanced version of ITK-SNAP for preoperative inspection and refinement of surface mesh models
ISABEL '11 Proceedings of the 4th International Symposium on Applied Sciences in Biomedical and Communication Technologies, Article No. 179, 2011
ISBN: 978-1-4503-0913-4 doi>10.1145/2093698.2093877

Morais AM, Machado LS.
CyberMedVPS: Visual Programming for Development of Simulators
Medicine Meets Virtual Reality 18: NextMed
edited by James D. Westwood, Susan W. Westwood, Li Fellander-Tsai, Ph.D.,
Stud Health Technol Inform. 2011;163:386-8.
PMID: 21335824

Preto, Bruno Alexandre Meirinhos
Utilização de GPGPUs para a identificação de objectos em imagens tomográficas
Nov. 2011

Rampersad, S.M.; Stegeman, D.F.; Oostendorp, T.F., "Single-Layer Skull Approximations Perform Well in Transcranial Direct Current Stimulation Modeling," Neural Systems and Rehabilitation Engineering, IEEE Transactions on , vol.PP, no.99, pp.1,1, 0 2011
doi: 10.1109/TNSRE.2012.2206829

Sanftmann, H.; Cipriani, N. ;  Weiskopf, D.
Distributed context-aware visualization
Pervasive Computing and Communications Workshops (PERCOM Workshops), 2011 IEEE International Conference on
Page(s): 251 - 256, 2011

Ismael H. F. dos Santos, Luciano P. Soares, Felipe Carvalho, Alberto Raposo
A collaborative VR visualization environment for offshore engineering projects
VRCAI '11 Proceedings of the 10th International Conference on Virtual Reality Continuum and Its Applications in Industry, Pages 179-186, ACM New York, NY, USA 2011.

LI Shan-shan,WANG Qun  
Design and Implementation of Multi-physics Coupling Mechanism of Sun-Earth System
Computer Engineering, 2011-03.

Brad Whitlock, Jean M. Favre, Jeremy S. Meredith
Parallel In Situ Coupling of SimulationWith A Fully Featured Visualization System
Eurographics Symposium on Parallel Graphics and Visualization (2011), pp. 1–8

Ivo Wolf
Toolkits and Software for Developing Biomedical Image Processing and Analysis Applications
Biomedical Image Processing

Biological and Medical Physics, Biomedical Engineering, 2011, Part 8, 521-544,
DOI: 10.1007/978-3-642-15816-2_21


Yi Cao ; Huawei Wang ;  Jiming Wu
Remote visual analysis of numerical simulations on distributed-memory parallel environment
Audio Language and Image Processing (ICALIP), 2010 International Conference on
Page(s): 633 - 637, 2010.

Andrew D. Firlik, Bradford Evan Gliner, W. Douglas Sheffield, Leif R. Sloan.
Systems and Methods for Patient Interactive Neural Stimulation and/or Chemical Stubstance Delivery
US Patent No: US7,856,264 B2, Dec. 21, 2010

L. Gonzalez Sal, J. Perez Turiel and J. C. Fraile Marinero
Phenomenological Model of the Cardiac Propagation Proccess
World Congress on Medical Physics and Biomedical Engineering, September 7 - 12, 2009, Munich, Germany
IFMBE Proceedings, 2010, Volume 25/4, 1822-1825,
DOI: 10.1007/978-3-642-03882-2_484

Michal Hucko, Michal Vanek, Miloš Šrámek
The VRE volume rendering engine
SCCG '10 Proceedings of the 26th Spring Conference on Computer Graphics
Pages 61-68, 2010
ISBN: 978-1-4503-0558-7 doi>10.1145/1925059.1925072

Pilsung Kang, Naresh K.C. Selvarasu, Naren Ramakrishnan, Calvin J. Ribbens, Danesh K. Tafti, Srinidhi Varadarajan.
Dynamic tuning of algorithmic parameters of parallel scientific codes
Procedia Computer Science, Volume 1, Issue 1, May 2010, Pages 145–153, ICCS 2010

Blake C. Lucas, John A. Bogovic, Aaron Carass, Pierre-Louis Bazin, Jerry L. Prince, Dzung L. Pham and Bennett A. Landman
The Java Image Science Toolkit (JIST) for Rapid Prototyping and Publishing of Neuroimaging Software
Neuroinformatics, Volume 8, Number 1 (2010), 5-17, DOI: 10.1007/s12021-009-9061-2

Aline Marques de Morais, Liliane dos Santos Machado
Programação Visual para um Framework de Desenvolvimento de
Aplicações Médicas Baseadas em Realidade Virtual
Proceedings of CBIS 2010

Rohan J. McAdam
Continuous interactive simulation: Engaging the human sensory-motor system in understanding dynamical systems
Procedia Computer Science
Volume 1, Issue 1, May 2010, Pages 1691–1698, ICCS 2010

Konrad Muhler, Christian Tietjen, Felix Ritter, Bernhard Preim
The Medical Exploration Toolkit: An Efficient Support for Visual Computing in Surgical Planning and Training
Visualization and Computer Graphics, IEEE Transactions on, Vol. 16, No. 1, pp. 133--146, 2010.

Paulo Jorge Quaresma, Adriano Lopes, Pedro Medeiros, Bruno Preto, Alexandre Velhinho
Tomo-GPU: Um Ambiente de Resolução de Problemas Destinado à Análise de Dados Tomográficos Relativos à
Revista de Ciências da Computação
Caracterização Estrutural de Materiais
Capa > v. 5, n. 5 (2010) > Quaresma

W. Douglas Sheffield, Andrew D. Firlik, Katrina S. Firlik
Methods and Apparatus for Effectuating Lasting Change in a Neural-Function of a Patient
US Patent No: US 7,756,584 B2, July 13, 2010

P. Šovícek, Š. Havránek, J. Šimek, M. Zborník, M. Mlcek and O. Kittnar
Isopotential ECG Imaging Correctly Identified Endocardial Ectopic Activation Site in the Case of Arrhythmia from Right Ventricular Outflow Tract
World Congress on Medical Physics and Biomedical Engineering, September 7 - 12, 2009, Munich, Germany
IFMBE Proceedings, 2010, Volume 25/4, 1965-1968, DOI: 10.1007/978-3-642-03882-2_522

Hongfeng Yu ; Chaoli Wang ;  Grout, R.W. ;  Chen, J.H. ;  Kwan-Liu Ma
In Situ Visualization for Large-Scale Combustion Simulations
Computer Graphics and Applications, IEEE, May-June 2010
Vol. 30, No. 3, pp. 45--57


9th International Conference Baton Rouge, LA, USA, May 25-27, 2009 "Proceedings, Part I. Series: Lecture Notes in Computer Science, Subseries: Theoretical Computer Science and General Issues", Vol. 5544, Allen, G.; Nabrzyski, J.; Seidel, E.; Albada, G.D.; Dongarra, J.; Sloot, P.M.A. (Eds.) 2009, XXXVIII, 1031 p., Softcover
ISBN: 978-3-642-01969-2 [2]

Yu-Cheng Chou, David Ko, Harry H. Cheng "Mobile agent-based computational steering for distributed applications" In Concurrency and Computation: Practice and Experience, Volume 21 Issue 18, Pages 2377 - 2399 Published Online: 21 Aug 2009. [3]

Nathan DeBardeleben, Ron Sass, Daniel Stanzione Jr., Walter B. Ligon III. "Building problem-solving environments with the Arches framework" In Journal of Systems and Software, Volume 82, Issue 7, July 2009, Pages 1137-1151 [4]

L. Gonzalez Sal, J. Perez Turiel and J. C. Fraile Marinero. "Phenomenological Model of the Cardiac Propagation Proccess" IFMBE Proceedings, World Congress on Medical Physics and Biomedical Engineering, September 7 - 12, 2009, Munich, Germany, Vol. 25/4, pp. 1822--1825, 2009. [5]

Ian Gorton, Daniel Chavarria, Jarek Nieplocha. "Design and implementation of a high-performance CCA event service" Concurrency and Computation: Practice and Experience, Volume 21 Issue 9, Pages 1159 - 1179, Published Online: 13 Feb 2009. [6]

Felix G. Hamza-Lup, Ivan Sopin. "Web-Based 3D and Haptic Interactive Environments for e-Learning, Simulation, and Training" Lecture Notes in Business Information Processing, Volume 18, Part 5, pp. 349--360, 2009. [7]

Peter Lasch, Antje Hermelink and Dieter Naumann. "Correction of axial chromatic aberrations in confocal Raman microspectroscopic measurements of a single microbial spore" Analyst, Vol. 134, pp. 1162-1170, 2009. [8]

Don McNaughton, Bayden R. Wood, Timothy C. Cox, Jorg-Detlef Drenckhahn, Keith R. Bambery
3-D Imaging of Biomedical Samples
Ch. 6 in Infrared and Raman Spectroscopic Imaging
edited by Reiner Salzer, Heinz W. Siesler
John Wiley & Sons, Mar 17, 2009

Svjetlana Miocinovic, Scott F. Lempka, Gary S. Russo, Christopher B. Maks, Christopher R. Butson, Ken E. Sakaie, Jerrold L. Vitek, Cameron C. McIntyre. "Experimental and theoretical characterization of the voltage distribution generated by deep brain stimulation" In Experimental Neurology, Volume 216, Issue 1, March 2009, Pages 166-176 [9]

Eduardo Morales MSEE, Mark Gomez, Z. Abedin MD, Joseph H. Pierluissi PhD. "Statistical Localization of Arrhythmias Using Precordial ECG leads" International Journal of Bioelectromagnetism, Vol. 11, No. 1, pp. 50 - 53, 2009. [10]

E. Morales, J. H. Pierluissi, M. Gomez and Z. Abedin. "Locating Equivalent Cardiac Electrical Activity from ECG for Preliminary Diagnosis", IFMBE Proceedings, 25th Southern Biomedical Engineering Conference 2009, 15 – 17 May 2009, Miami, Florida, USA, Vol. 24, pp. 253--254. [11]

Gianluca Paladini, Fred S. Azar, Ph.D.
An extensible imaging platform for optical imaging applications
Multimodal Biomedical Imaging IV, edited by Fred S. Azar, Xavier Intes, Proc. of SPIE Vol. 7171,
717108 · © 2009 SPIE · CCC code: 1605-7422/09/$18 · doi: 10.1117/12.816626
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M. Rullmann, A. Anwander, M. Dannhauer, S.K.Warfield, F.H. Duffy, C.H. Wolters. "EEG source analysis of epileptiform activity using a 1 mm anisotropic hexahedra finite element head model" NeuroImage, Volume 44, Issue 2, Pages 399-410, 15 January 2009. [12]

Adnan M. Salman, Allen D. Malony, Matthew J. Sottile. "An Open Domain-Extensible Environment for Simulation-Based Scientific Investigation (ODESSI)". Lecture Notes in Computer Science - Computational Science – ICCS 2009, Volume 5544/2009, pp. 23-32, 2009. [13]

Reiner Salzer, Heinz W. Siesler. "Infrared and Raman Spectroscopic Imaging" 2009. [14]

Samuel Silva, Beatriz Sousa Santos, Joaquim Madeira, Augusto Silva, "Processing, Visualization and Analysis of Medical Images of the Heart: An Example of Fast Prototyping Using MeVisLab," viz, pp.165-170, 2009 Second International Conference in Visualisation, 2009 [15]

Jacob Sorensen, Scott B. Baden. "Hiding Communication Latency with Non-SPMD, Graph-Based Execution" Lecture Notes in Computer Science - Computational Science – ICCS 2009, Volume 5544/2009, pp. 155-164, 2009. [16]

M. Scot Swan, Rebecca M. Brannon
University of Utah Department of Mechanical Engineering
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Richard Ward, Line Pouchard, Barbara Beckerman, Stewart Dickson

José Zariffa, Mary K. Nagai, Zafiris J. Daskalakis, Milos R. Popovic. "Bioelectric Source Localization in the Rat Sciatic Nerve: Initial Assessment Using an Idealized Nerve Model" IFMBE Proceedings, World Congress on Medical Physics and Biomedical Engineering, September 7 - 12, 2009, Munich, Germany, Vol. 25/9, pp. 138--141, 2009. [18]


M.S. Avila-Garcia, A.E. Trefethen, M. Brady, F. Gleeson, D. Goodman. "Lowering the Barriers to Cancer Imaging" Proceedings of the 2008 Fourth IEEE International Conference on eScience, Pages: 63-70, 2008. [19]

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Christopher R. Butson, Cameron C. McIntyre. "Current steering to control the volume of tissue activated during deep brain stimulation" In Brain Stimulation, Volume 1, Issue 1, January 2008, Pages 7-15

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Jeremy W. Galusha, Lauren R. Richey, John S. Gardner, Jennifer N. Cha, and Michael H. Bartl. "Discovery of a diamond-based photonic crystal structure in beetle scales" Phys. Rev. Vol. 77, Issue 5, 2008. [22]

LS Graham, D Kilpatrick, F Sainsbury, AC Yong. "The Determination of the Bidomain Conductivity Values of Heart Tissue" Computers in Cardiology 2008;35:193-196. 2008. [23]

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F. G. Hamza-Lup, Savannah M. Adams. "Feel the Pressure: E-learning Systems with Haptic Feedback" Proceedings of the 2008 Symposium on Haptic Interfaces for Virtual Environment and Teleoperator Systems, pp. 445--450, 2008. [24]

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Dakun Lai ; Taotao Cao ;  Zuxiang Fang
Modeling and Simulation of Three Orthogonal Transthoracic Electrical-Fields for Localization Method of Intracardiac Catheter
Bioinformatics and Biomedical Engineering, 2008. ICBBE 2008. The 2nd International Conference on
Page(s): 1461 - 1463, 2008

Don McNaughton, Keith Bambery, Bayden R. Wood.
Spectral Histopathology of the Human Cervix
Handbook of Vibrational Spectroscopy
Published Online: 13 JUN 2008
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Anne H.H. Ngu, Shawn Bowers, Nicholas Haasch, Timothy McPhillips and Terence Critchlow. "Flexible Scientific Workflow Modeling Using Frames, Templates, and Dynamic Embedding" Lecture Notes in Computer Science, Scientific and Statistical Database Management, Vol. 5069/2008, pp. 566--572. http://www.springerlink.com/content/c523h711h6104018/

Edward K. Rhee. "Editorial Commentary: Finite element modeling of novel ICD configurations in pediatric and congenital heart disease: Validation of the MacGyver principle?", , Heart Rhythm, Vol. 5, No. 4, April 2008. (Note: Makes complimentary reference to M. Jolley, J. Stinstra, S. Pieper, R.S. MacLeod, D.H. Brooks, F. Cecchin, J.K. Triedman. "A Computer Modeling Tool for Comparing Novel ICD Electrode Orientations in Children and Adults," In Heart Rhythm, Vol. 5, No. 4, pp. 565--572. April, 2008.)

Asbjørn Rygg, Paul Roe, On Wong, Jiro Sumitomo
GPFlow: an intuitive environment for web-based scientific workflow
Concurrency and Computation: Practice and Experience
Special Issue: First International Workshop on Workflow Systems in Grid Environments (WSGE2006)
Volume 20, Issue 4, pages 393–408, 25 March 2008

François Rioux, François Bernier, Denis Laurendeau. "DESIGN AND IMPLEMENTATION OF AN XML-BASED, TECHNOLOGY-UNIFIED DATA PIPELINE FOR INTERACTIVE SIMULATION" In Proceedings of the 2008 Winter Simulation Conference, pp. 1130--1138, 2008.

Dylan Stark, Gabrielle Allen, Tom Goodale, Thomas Radke and Erik Schnetter. "An Extensible Timing Infrastructure for Adaptive Large-Scale Applications" In Lecture Notes in Computer Science, Parallel Processing and Applied Mathematics, Vol. 4967/2008, pp. 1170--1179, 2008. [27]

Tejwani, Kamal Ram
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Xavier Tricoche, Member, IEEE, Gordon Kindlmann, and Carl-Fredrik Westin, "Invariant Crease Lines for Topological and Structural Analysis of Tensor Fields" Proceedings of IEEE Visualization 2008. [ PDF ]

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Nanbor Wang, Paul Hamill, Fang Liu
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Richard C. Ward, Line C. Pouchard, Nancy B. Munro and Sarah K. Fischer. "Virtual Human Problem-Solving Environments" In Lecture Notes in Computer Science, Digital Human Modeling, Vol. 4650/2008, pp. 108--132, 2008. [29]

Adianto Wibisono, Zhiming Zhao, Adam Belloum, Marian Bubak. "A Framework for Interactive Parameter Sweep Applications" Lecture Notes in Computer Science, Computational Science – ICCS 2008, Volume 5103/2008, pp. 481-490, 2008. [30]

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Christopher R. Butson, Scott E. Cooper, Jaimie M. Henderson and Cameron C. McIntyre "Patient-specific analysis of the volume of tissue activated during deep brain stimulation" NeuroImage Volume 34, Issue 2, No. 15, Pages 661-670 January 2007. [35]

LAI Da-kun, CAO Tao-tao, WU Xiao-mei, and FANG Zu-xiang. "Optimization of Electrodes Displacement for Transthoracic Defibrillation: A Simulation Study on Spatial Configuration Pattern" In International Journal of Bioelectromagnetism, Vol. 9, No. 1, pp. 43--44, 2007.

Ian Gorton, Daniel Chavarria-Miranda, Manojkumar Krishnan, Jarek Nieplocha. "A High-Performance Event Service for HPC Applications" International Conference on Software Engineering, Proceedings of the 3rd International Workshop on Software Engineering for High Performance Computing Applications, Page 1, 2007. [37]

Alex Shenfield, Peter J. Fleming, Muhammad Alkarouri. "Computational steering of a multi-objective evolutionary algorithm for engineering design" Engineering Applications of Artificial Intelligence, Volume 20 , Issue 8, Pages 1047-1057, December 2007. [38]

Andrea Viezzoli, Anders V. Christiansen, Esben Auken and Kurt Sørensen
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S.-M. Yau, E. Grinspun, V. Karamcheti, D. Zorin. "SimX meets SCIRun: A Component-based Implementation of a Computational Study System" IEEE International Parallel and Distributed Processing Symposium, pp. 1-6, 26-30 March 2007. IPDPS 2007. [39]


DC Banks, W Blanco. "InvIncrements: Incremental Software to Support Visual Simulation" In Proceedings of SPIE, 2006. [40]

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Marat Boshernitsan, Roongko Doong, Alberto Savoia. "From Daikon to Agitator: lessons and challenges in building a commercial tool for developer testing" In ISSTA '06: Proceedings of the 2006 International Symposium on Software Testing and Analysis, pp. 169--180, 2006. (Ref. scirun) [42]

Marian Bubak, Wlodzimierz Funika, Marcin Koch, Dominik Dziok, Allen D. Malony, Marcin Smetek and Roland Wismüller. "Towards the Performance Visualization of Web-Service Based Applications", Parallel Processing and Applied Mathematics, Lecture Notes in Computer Science, Volume 3911/2006, pp. 108-115, Friday, June 09, 2006. [43]

Christopher R. Butson, Scott E. Cooper, Jaimie M. Henderson and Cameron C. McIntyre. "Predicting the Effects of Deep Brain Stimulation with Diffusion Tensor Based Electric Field Models" Lecture Notes in Computer Science, Vol. 4191/2006, p. 429-437, Sept 29, 2006. [44]

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M. Folkert, G. Chen. "Biological Lung Phantom for Image-Guided Proton Therapy Validation" International Journal of Radiation OncologyBiologyPhysics, Volume 66, Issue 3, Pages S496-S496, 2006 [47]

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Richard C Ward, Line C Pouchard, Barbara G Beckerman and Stewart P Dickson. "The HotBox: a visual user interface to medical data" Information Visualization (2006) 5, 290–295. doi:10.1057/palgrave.ivs.9500138; published online 26 October 2006. [50]

Bayden R Wood, Keith R Bambery, Corey J Evans, Michael A Quinn, Don McNaughton. "three-dimensional multivariate image processing technique for the analysis of FTIR spectroscopic images of multiple tissue sections" In BMC Medical Imaging, 6:12doi:10.1186/1471-2342-6-12 2006. Versions Available: [ [PDF] ]

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Richard C. Ward, Line C. Pouchard, James J. Nutaro. "Integrative Computational Frameworks for Multiscale Digital Human Modeling and Simulation" Lecture Notes in Computer Science, Computational Science – ICCS 2006, Vol. 3994/2006, pp. 814--821, 2006. [52]


R. Bramley, R. Armstrong, L. McInees. "High Performance Component Software Systems, in Frontiers of Parallel Processing for Scientific Computing", M.A. Heroux, P. Raghavan, and H.D. Simon, editors, Software, Environments, and Tools, SIAM, 2005.

Stewart Dickson, Line Pouchard, Richard Ward, Gary Atkins, Martin Cole, Bill Lorensen, Alexander Ade. "Linking human anatomy to knowledgebases: a visual front end for electronic medical records" Studies in Health Technology and Informatics Vo. 111, pp. 586 - 591, 2005.
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P. González, V. Soriano, T. Caballero, E. Niveiro. "Idiopatic angioedema treated with dapsone" Allergologia et Immunopathologia, Volume 33, Issue 1, 2005, Pages 54-56

Wlodzimierz Funika, Marcin Koch, Dominik Dziok, Marcin Smetek and Roland Wismüller. "Performance Visualization of Web Services Using J-OCM and SCIRun/TAU" In High Performance Computing and Communcations, Lecture Notes in Computer Science, Volume 3726/2005, pp. 666-671, 2005. [53]

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YO Halchenko, SJ Hanson, BA Pearlmutter. "Multimodel integration: fMRI, MRI, EEG, MEG" pages 223-265 (Chapter 8) of Luigi Landini, Vincenzo Positano and Maria Filomena Santarelli (eds) Advanced Image Processing in Magnetic Resonance Imaging, Dekker, book series on Signal Processing and Communications, ISBN 0824725425, 2005. [55]

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DP Schissel. "Building the US National Fusion Grid: The National Fusion Collaboratory Project" in Fusion Science and Technology, 2005
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I. Altintas, C. Berkley, E. Jaeger, M. Jones, B. Ludascher, S. Mock. "Kepler: an extensible system for design and execution of scientific workflows" Proceedings. 16th International Conference on Scientific and Statistical Database Management, pp. 423-424, 21-23 June, 2004. [59]

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Giuseppina Fabbiano "VO Activities at the Harvard-Smithsonian CfA" ESO Astrophysics Symposia, Volume 15, p.80, 2004. (not verified)

Allen D. Malony, Sameer Shende, Robert Bell, Kai Li, Li Li, Nick Trebon. "Advances in the TAU performance system" Performance analysis and grid computing pp. 129-144, 2004. (no document could not verify)

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Ken Brodlie, David Duce, Julian Gallop, Musbah Sagar, Jeremy Walton, Jason Wood. "Visualization in Grid Computing Environments" Proceedings of the conference on Visualization '04 Pages: 155 - 162, 2004.
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Brent Woods, Bradley Clymer, Joel Saltz, Tahsin Kurc. "A Parallel Implementation of 4-Dimensional Haralick Texture Analysis for Disk-Resident Image Datasets" Conference on High Performance Networking and Computing, Proceedings of the 2004 ACM/IEEE conference on Supercomputing p. 48, 2004
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Patrick S. McCormick, Jeff Inman, James P. Ahrens, Charles Hansen, Greg Roth "Scout: A Hardware-Accelerated System for Quantitatively Driven Visualization and Analysis" Proceedings of the conference on Visualization '04 Pages: 171 - 178, 2004. Versions Available: [ PDF ]

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Jason S. Sobel, Andrew S. Forsberg, David H. Laidlaw, Robert C. Zeleznik, Daniel F. Keefe, Igor Pivkin, George E. Karniadakis, Peter Richardson, and Sharon Swartz - Brown University "Particle Flurries: Synoptic 3D Pulsatile Flow Visualization" IEEE Computer Graphics and Applications, pp. 76--85, March/April 2004.
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Ilkay Altintas, Chad Berkley, Efrat Jaeger, Matthew Jones, Bertram Ludäscher, Steve Mock. "Kepler: An Extensible System for Design and Execution of Scientific Workflows" In Proceedings of the 16th International Conference on Scientific and Statistical Database Management (SSDBM'04) 1099-3371/04, 2004
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Nathan DeBardeleben, Walter B. Ligon, III and Ron Sass. "Arches: An Infrastructure for PSE Development" In Proceedings of the Ninth International Workshop on High-Level Parallel Programming Models and Supportive Environments (HIPS'04) 0-7695-2151-7/04 2004
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Craig C. Douglas. "A Note on Dynamic Data Driven Application Simulation (DDDAS) Using Virtual Telemetry"
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MJ Bockelie, DA Swensen, MK Denison, AF Sarofim. "A Computational Workbench Environment For Virtual Power Plant Simulation" Quarterly Progress Report, January 28, 2004, DOE Cooperative Agreement No: DE-FC26-00NT41047 Reaction Engineering International, 2004.
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Prof. Giandomenico Spezzano and Stefano Santagada. "CAMELotGRID: UN AMBIENTE DI PROBLEM SOLVING PER APPLICAZIONI CELLULARI SU GRIGLIE COMPUTAZIONALI" Universita degli Studi della Calabria 2002 - 2003.
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(Access restricted, could not verify.)

Sara E. Larsen. "Quantitative Comparison of Functional MRI and Electro-Cortical Stimulation for Function Mapping" Masters Thesis. Dept. of Electrical Engineering and Computer Science, MIT, Dec. 2003. [65]

Kwan-Liu Ma "Visualizing Time-Varying Volume Data" Computing In Science & Engineering, pp.34--42, 2003.
Versions Available: [ PDF ]

W Bausch, C Pautasso, G Alonso "Programming for Dependability in a Service-based Grid" Proceedings of the 3rd IEEE/ACM International Symposium on Cluster Computing and the Grid (CCGRID.03), 2003.
Versions Available: [ PDF ]

K Li, A Malony, R Bell, S Shende "A Framework for Online Performance Analysis and Visualization of large-Scale Parallel Applications" International Conference on Parallel Processing and Applied …, 2003

Filip J. R. Meysman, Jack J. Middelburg, Peter M. J. Herman, Carlo H. R. Heip. "Reactive transport in surface sediments I. Mexity and software quality" Computers & Geosciences, vol. 29, Iss. 3, pp. 291--300, 2003. (no document could not verify)

V. Pascucci,D. E. Laney, R. J. Frank, G. Scorzelli, L. Linsen,B. Hamann, F. Gygi "Real-time monitoring of large scientific simulations", Proceedings of the 2003 ACM symposium on Applied computing p. 194-198, 2003.
Versions Available: [ PDF ]

T. van Reimersdahl, F. Bley, T. Kuhlen, C. H. Bischof "Haptic rendering techniques for the interactive exploration of CFD datasets in virtual environments" Proceedings of the workshop on Virtual environments 2003 Pages: 241 - 246, 2003.
Versions Available: [ PDF ]

Y. Suzuki, K. Sai, N. Matsumoto, O. Hazama. "Visualization systems on the Information Technology-Based Laboratory" IEEE Computer Graphics and Applications, Vol. 23, No. 2, pp. 32-39, Mar/Apr 2003. [66]

B. Taccardi, B.B. Punske, P. Colli-Franzone. "Epicardial and endocardial electrical mapping: historical overview, state of the art and future prospects.", 2003.

Edward J. Vigmond PhD, Matt Hughes BSc, G. Plank PhD and L. Joshua Leon PhD. "Computational tools for modeling electrical activity in cardiac tissue," Department of Electrical and Computer Engineering, University of Calgary, Alberta, Canada Journal of Electrocardiology Volume 36, Supplement 1, Pages 69-74, December 2003.
Versions Available: [ PDF ]

Filip J. R. Meysman, Jack J. Middelburg, Peter M. J. Herman and Carlo H. R. Heip. "Reactive transport in surface sediments. I. Model complexity and software quality," Reactive Transport Modeling in the Geosciences, Computers & Geosciences Volume 29, Issue 3, Pages 291-300, April 2003.

Yoshio Suzuki, Kazunori Sai, Nobuko Matsumoto, and Osamu Hazama. Japan Atomic Energy Research Institute "Visualization Systems on the Information-Technology-Based Laboratory" In Computer Graphics and Applications, IEEE March/April 2003, Vol. 23, No. 2, pp. 32--39 ISSN: 0272-1716, 2003.
Versions Available: [ (abstract) HTML ] [ PDF ]

A. Kurtinaitis, R. Vaicekauskas, F. Ivanauskas. "FDVis: the Interactive Visualization and Steering Environment for the Computational Processes Using the Finite-Difference Method" Nonlinear Analysis: Modelling and Control, Vol. 8, No. 2, pp.71–82, 2003.
Versions Available: [ PDF ]

Geoffrey Fox, Dennis Gannon, Mary Thomas. "Overview of Grid Computing Environments" Community Grid Computing Laboratory, Indiana University, 2003.
Versions Available: [ PDF ]

- also -

G. Fox, M. Pierce, D. Gannon, M. Thomas. "Overview of Grid Computing Environments" Global Grid Forum, Feb 15, 2003.
Versions Available: [ Word Doc ]


Tony Hey, Juri Papay. "Performance engineering, PSEs and the GRID" In Scientific Programming Vol. 10, pp. 3--17, 2002. [67]

"Theoretical Biophysics Group 2002 Report" NIH Resource for Macromolecular Modeling and Bioinformatics NIH/NCRR, Professor Klaus Schulten, Principal Investigator. Deparment of Physics and Beckman Institute, University of Illinois. 2002.
Versions Available: [ PDF ]

Anna Morajko. "Dynamic Tuning of Parallel/Distributed Applications" Departament d'Informatica Unitat d'Arquitectura d'Ordinadors i Sistemes Operatius Thesis submitted by Anna Morajko in fulfillment of the requirements for the degree of Doctor per la Universitat Autonoma de Barcelona, Dec. 18 2003.
Versions Available: [ PDF ]

O. Arino, S. Fleishman and Z. Agur. "The Role of Biomathematics as a Scientific Discipline" ECMTB February 2002 No. 3.
Versions Available: [ PDF ]

Tony Hey and Juri Papay. "Performance engineering, PSEs and the GRID" Scientific Programming Volume 10, Number 1, Pages: 3-17, 2002.
Versions Available: [ (Abstract) HTML ]

Jeffrey Benner. "Public money, private code" Salon.com Jan. 4, 2002.
Versions Available: [ HTML ]

Dorian C. Arnold, Henri Casanova, Jack Dongarra. "Innovations of the NetSolve Grid Computing System" Concurrency and Computaion: Practice and Experience, Vol. 14, pp. 1-23, 2002.
Versions Available: [ PDF ]

J. H. D. Keukelaar "Topics in Soft Computing" Doctoral Dissertation, Royal Institute of Technology, Department of Numerical Analysis and Computer Science, 2002.
Versions Available: [ PDF ]

Olof Hellman, Justin Vandenbroucke, John Blatz du Rivage, David N. Seidman. "Application software for data analysis for three-dimensional atom probe microscopy" Materials Science and Engineering A327 p. 29–33, 2002.
Versions Available: [ PDF ]

Greg Eisenhauer, Fabian E. Bustamante, and Karsten Schwan "Native data representation: an efficient wire format for high performance computing" GIT-CC-01-18 IEEE Transactions on Parallel and Distributed Systems, 2002.
Versions Available: [ HTML ]

RG Belleman, PMA Sloot. "The design of dynamic exploration environments for computational steering simulations" Proceedings of the SGI Users' Conference, 2000.
Versions Available: [ HTML ]

Christopher J. Montgomery, David A. Swensen, Tyson V. Harding, Marc A. Cremer, Michael J. Bockelie. "A computational problem solving environment for creating and testing reduced chemical kinetic mechanisms", In Advances in Engineering Software, Vol. 33, Issue 2, pp. 59--70, 2002. (no document could not verify)

Anne E. Trefethen, Brian Ford. "Numerical algorithm delivery mechanisms" Computational science, mathematics and software pp. 27-42, 2002. (no document could not verify)

Cristian Tapus, I-Hsin Chung, Jeffrey K. Hollingsworth. "Active harmony: towards automated performance tuning" Proceedings of the 2002 ACM/IEEE conference on Supercomputing p. 1-11, 2002. (SCIRun only mentioned in title of cited paper)
Versions Available: [ PDF ]

Christopher Goodyer, Martin Berzins. "Eclipse and Ellipse: PSEs for EHL Solutions Using IRIS Explorer and SCIRun" In Lecture Notes In Computer Science Vol. 2329, Proceedings of the International Conference on Computational Science-Part I, Pages 523-532, 2002.

K. Amin, G. von Laszewski, S. Nijsure. "Open Collaborative Grid Service Architecture (OCGSA)" Proc. Euroweb 2002 — The Web and the GRID: from e-science to e-business, 2002.
Versions Available: [ PDF ]

D.P. Schissel for the National Fusion Collaboratory Project. "An Advanced Collaborative Environment to Enhance Magnetic Fusion Research," Presented at the Workshop on Advanced Collaborative Environments, 2002.
Versions Available: [ PDF ] [ HTML ]

Pasqua D'Ambra, Marco Danelutto, Daniela di Serafino, Marco Lapegna. "Advanced environments for parallel and distributed applications: a view of current status" Parallel Computing, Vol. 28, No. 12, pp. 1637--1662, December 2002. Special issue: Advanced environments for parallel and distributed computing, ISSN:0167-8191, Elsevier Science Publishers B. V.
Versions Available: [ (abstract) HTML ]

Christopher J. Montgomery, David A. Swensen, Tyson V. Harding, Marc A. Cremer and Michael J. Bockelie. "A computational problem solving environment for creating and testing reduced chemical kinetic mechanisms," Advances in Engineering Software Volume 33, Issue 2, Pages 59-70, February 2002.

M. Walkley, J. Wood, K. Brodlie. "A Distributed Co-Operative Problem Solving Environment" Lecture Notes in Computer Science, ISSN: 0302-9743, Volume 2329 / 2002. Title: Computational Science - ICCS 2002: International Conference, Amsterdam, The Netherlands, April 21-24, 2002. Proceedings, Part I Editors: P.M.A. Sloot, C.J. Kenneth Tan, J.J. Dongarra, A.G. Hoekstra (Eds.) Chapter: p. 853, August 2002.
Versions Available: [ HTML ] [ PDF ]

J Leng, L Margetts. "Parameter Steering in Geomechanics" UK High End Computing, Dec. 2002.
Versions Available: [ PDF ]

Christopher Goodyer, Martin Berzins. "Eclipse and Ellipse: PSEs for EHL Solutions Using IRIS Explorer and SCIRun"</b> In Lecture Notes In Computer Science Vol. 2329, Proceedings of the International Conference on Computational Science-Part I, Pages 523-532, 2002.

Geoffrey Fox, Dennis Gannon, Mary Thomas. "Editorial: A summary of Grid Computing Environments" In Concurrency and Computation: Practice and Experience Volume 14, Issue 13-15 , Pages 1035 - 1044 Special Issue: Grid Computing Environments. Concurrency and Computation: Practice and Experience, 2002.
Versions Available: [ PDF ]


Michael (EDT) Gerndt, Germany. "Performance-Oriented Application Development for Distributed Architectures: Perspectives..." Munich ISBN: 1586032674 - IOS Press, 2001. (BioPSE reference, could not verify)

Bernhard Reitinger "On-line Program and Data Visualization of Parallel Systems in a Monitoring and Steering Environment" Thesis, TR-GUP-02-005 Department for Graphics and Parallel Processing Johannes Kepler University, Linz, 2001.
Versions Available: [ PDF ]

Paul H J Kelly, Olav Beckmann, Tony Field, Scott B Baden. "THEMIS: Component dependence metadata in adaptive parallel applications" Parallel Processing Letters, 2001.
Versions Available: [ PDF ]

Don Hannema "Interaction in Virtual Reality" MSc thesis, University of Amsterdam, Amsterdam, The Netherlands. 2001.
Versions Available: [ PDF ]

Samian Kaur, Vijay Mann, Vincent Matossian, Rajeev Muralidhar and Manish Parashar "Engineering a Distributed Computational Collaboratory" Proceedings of the 34th Hawaii International Conference on System Sciences, 2001.
Versions Available: [ PDF ]

Stephan Olbrich, Helmut Pralle. "A tele-immersive, virtual laboratory approach based on real-time streaming of 3D scene sequences" International Multimedia Conference; Vol. 9, Proceedings of the ninth ACM international conference on Multimedia, Session: Posters and Short Papers, pp. 534-537, 2001. (SCIRun only mentioned in title of cited paper)
Versions Available: [ PDF ]

Eric B. Lum, Kwan Liu Ma, John Clyne. "Texture hardware assisted rendering of time-varying volume data" Proceedings of the conference on Visualization '01, SESSION: Session P9: interactive volume rendering, P. 263 - 270, 2001.
Versions Available: [ PDF ]

Dirk Bartz, Dirk Staneker, Wolfgang Straßer, Brian Cripe, Tom Gaskins, Kristann Orton, Michael Carter, Andreas Johannsen, Jeff Trom. "Jupiter: a toolkit for interactive large model visualization" Proceedings of the IEEE 2001 symposium on parallel and large-data visualization and graphics P. 129-134, 2001.
Versions Available: [ PDF ]

Arthur W. Toga, David E. Rex and Jeff Ma. "A graphical interoperable processing pipeline," NeuroImage Volume 13, Issue 6, Supplement 1, Page 266, June 2001.

Alex Verstak, Marc Vass, Naren Ramakrishnan, Cliff Shaffer, Layne T. Watson, Kyung Kyoon Baey, Jing Jiangy, William H. Trantery, and Theodore S. Rappaporty. "Lightweight Data Management for Compositional Modeling in Problem Solving Environments," Proceedings of the High Performance Computing Symposium, Advanced Simulation Technologies Conference, pp. 148-153, Apr. 2001.
Versions Available: [ Postscript ] [ Postscript ]

Luc Renambot, Henri E. Bal, Desmond GERMANS, Hans J.W. Spoelder. "CAVEStudy: an Infrastructure for Computational Steering in Virtual Reality Environments," Cluster Computing, Kluwer Academic Publishers, Vol. 4, No. 1, March 2001.
ISSN: 13867857

David Abramson, Andrew Lewis, Tom Peachey, Clive Fletcher. "An Automatic Design Optimization Tool and its Application to Computational Fluid Dynamics," Proceedings of the 2001 ACM/IEEE conference on Supercomputing, Denver, Colorado, pp. 25, 2001.

V. Mann, V. Matossian, R. Muralidhar, M. Parashar. "DISCOVER: An Environment for Web-based Interaction and Steering of High-Performance Scientific Applications," Concurrency and Computation: Practice and Experience, Vol. 13, pp.737-–754, 2001.
Versions Available: [ PDF ]

C. J. Montgomery, D. A. Swensen, T. V. Harding and M. J. Bockelie. "Automated Creation and Testing of Reduced Chemical Kinetic Mechanisms" American Institute of Aeronautics and Astronautics 37th AIAA/ASME/SAE/ASEE Joint Propulsion Conference and Exhibit (AIAA 2001-3418), Salt Lake City, Utah, July 8-11, 2001.
Versions Available: [ PDF ]

James Ahrens, Kristi Brislawn, Ken Martin, Berk Geveci, C. Charles Law, Michael Papka. "Large-Scale Data Visualization Using Parallel Data Streaming" IEEE Computer Graphics and Applications July/August 2001, Vol. 21, No. 4, pp. 34--41, ISSN: 0272-1716, 2001.
Versions Available: [ (abstract) HTML ] [ PDF ]


Elias N. Houstis, John R. Rice "On the Future of Problem Solving Environments" (2000) [68]

William E. Johnston and Leigh Ann Tanner. "Status of the Information Power Grid" Aug 22, 2000.
Versions Available: [ PDF ]

Delbert R. Hart "Supporting Exploratory Visualization Of Distributed Computations" Washington University, Sever Institute Of Technology Department Of Computer Science Doctoral Thesis, 2000.
Versions Available: [ HTML ]

Samian Kaur, Rajeev Muralidhar and Manish Parashar. "An Environment for Web-based Interaction and Steering of High-Performance Scientific Applications" Department of Electrical and Computer Engineering and CAIP Center, Rutgers University, 2000.
Versions Available: [ PDF ]

J. A. White, A. W. Dutton, J. A. Schmidt, R. B. Roemer. "An accurate, convective energy equation based automated meshing technique for analysis of blood vessels and tissues" International Journal of Hyperthermia, Volume 16, Number 2 pp.145-158, March 1, 2000 (access restricted, could not verify)

Beth Plale, Karsten Schwan "dQUOB: Managing Large Data Flows Using Dynamic Embedded Queries" Ninth IEEE International Symposium on High Performance Distributed Computing (HPDC'00) p. 263, 2000. (Hit as citing "SCIRun: A Scientific Programming Environment for Computational Steering", could not verify.)

Russell M. Taylor, II. "Practical scientific visualization examples" ACM SIGGRAPH Computer Graphics Vol. 34, Issue 1, Pages: 74-79, February 2000. (Link crashes my browser)
Versions Available: [ PDF ]

Henri Casanova, Graziano Obertelli, Francine Berman, Rich Wolski. "The AppLeS parameter sweep template: user-level middleware for the grid" Proceedings of the 2000 ACM/IEEE conference on Supercomputing Article No. 60, 2000.
Versions Available: [ PDF ]

Anne E. Trefethen and Brian Ford. "Numerical algorithm delivery mechanisms," Mathematics and Computers in Simulation Volume 54, Issues 4-5, Pages 259--268, December 15, 2000.
- also -
Anne E. Trefethen and Brian Ford. "Numerical algorithm delivery mechanisms," Computational science, mathematics and software, Purdue University Press, West Lafayette, IN, USA ISBN:1-55753-250-8, Pages 27 - 42.

Randall Bramley, Kenneth Chiu, Shridhar Diwan, Dennis Gannon, Madhusudhan Govindaraju, Nirmal Mukhi, Benjamin Temko, Madhuri Yechuri. "A Component Based Services Architecture for Building Distributed Applications" Ninth IEEE International Symposium on High Performance Distributed Computing (HPDC'00) August 01 - 04, 2000, Pittsburgh, Pennsylvania, p. 51, 2000.
Versions Available: [ (abstract) HTML ]

James Ahrens, Charles Law, Will Schroeder, Ken Martin, Michael Papka. "A Parallel Approach for Efficiently Visualizing Extremely Large, Time-Varying Datasets," Los Alamos National Laboratory – Technical Report #LAUR-00-1620, 2000.
Versions Available: [ PDF ] [ PDF ]

Kwan-Liu Ma, David M. Camp. "High Performance Visualization of Time-Varying Volume Data over a Wide-Area Network," Conference on High Performance Networking and Computing, Proceedings of the 2000 ACM/IEEE conference on Supercomputing Dallas, Texas, United States, Article No. 29, pp. 29, 2000.

Rajeev Muralidhar, Manish Parashar. "An Interactive Object Infrastructure for Computational Steering of Parallel/Distributed Simulations,"
- possibly -
Rajeev Muralidhar, Manish Parashar. <b>"An Object Infrastructure for Computational Steering of Distributed Simulations,"
HPDC pp. 3040--305, 2000.

Anne E. Trefethen. "Software Components for Application Development,"
- or -
Arnaud Desitter, Antoine Le Hyaric, Geoff Morgan, Gareth Shaw, Anne E. Trefethen "Software Components for Application Development," The Architecture of Scientific Software 2000: Ottawa, Canada, The Architecture of Components, pp. 285-300

Rajeev Muralidhar, Samian Kaur and Manish Parashar. "An Architecture for Web-based Interaction and Steering of Adaptive Parallel/Distributed Applications," (2000) Proceedings of Euro-Par 2000, Lecture Notes in Computer Science, pp. 1332-1339, August 2000.
Versions Available: [ PDF ]

Rajeev D. Muralidhar. "A Distributed Object Framework For The Interactive Steering Of High Performance Applications," MS thesis, Department of Electrical and Computer Engineering, Rutgers, The State University of New Jersey, October 2000.

Helen Wright, Ken Brodlie, Jason Wood and Jim Proctor. "Problem Solving Environments: Extending the Role of Visualization Systems," Lecture Notes in Computer Science, Volume 1900, Euro-Par 2000 Parallel Processing, editors Arndt Bode, Thomas Ludwig, Wolfgang Karl, and Roland Wismueller, Springer-Verlag. pp. 1323-1331, 2000.
Versions Available: [ PDF ]

Beth Plale, Greg Eisenhauer, Lynn K. Daley, Patrick Widener, Karsten Schwan. "Fast Heterogeneous Binary Data Interchange for Event-based Monitoring," ISCA International Conference on Parallel and Distributed Computing Systems (PDCS), August 2000.
Versions Available: [ PDF ]

Ed H. Chi, John Riedl. "Case Study: Resource Steering in a Visualization System," Computer Science and Engineering Department, University of Minnesota, 4-192 EE/CS Building, Minneapolis, MN 55455, Data Visualization 2000, Edited by W. de Leeuw, R. van Liere, 2000.
Versions Available: [ PDF ]

David Abramson, Andrew Lewis, Tom Peachey. "NIMROD/O: A Tool For Automatic Design Optimisation," Using Parallel And Distributed Systems, submitted to World Scientific : 24/08/2000
Versions Available: [ PDF ]


Juan E. Villacis Jr. "The Component Architecture Toolkit" Dept. of Computer Science, Indiana University, 1999.
Versions Available: [file:///J:/Erik/virgil/site2004/internal/FAQs/outside_pubs_reference_scirun/pdfs/1999_Villacis.pdf PDF]

Beth Plale, Karsten Schwan. "Run-time Detection in Parallel and Distributed Systems: An Application to Safety-Critical Applications" Submitted to Int'l conf. on Distributed Computing Systems, ICDCS'99, 1999.
Versions Available: [ PDF ]

Ian Foster, Joseph Insley, Carl Kesselman, Gregor Von Laszewski, Marcus Thiebaux. "Distance Visualization: Data Exploration on the Grid", 1999. [69]

G Folino, G Spezzano. "Bioremediation Experiments using Interactive Computational Steering on High Performance Computers", ISI-CNR, DEIS, Universita della Calabria, Italy Fifth …, 1999 (link dead, could not verify)

Delbert Hart, Eileen Kraemer. "Consistency Considerations in the Interactive Steering of Computations" International Journal Of Parallel And Distributed Networks And Systems, 1999.
Versions Available: [ HTML ]

Peter J. Keleher, Jeffrey K. Hollingsworth, Dejan Perkovic "Exposing Application Alternatives"</b> 19th IEEE International Conference on Distributed Computing Systems, p. 384, 1999. (pdf restricted could not verify)

JB Pormann, JA Board Jr. "A modular simulation system for the bidomain equations" Duke University, 1999
Versions Available: [ PS ]

Beth Plale, Volker Elling, Greg Eisenhauer, Karsten Schwan, Davis King, Vernard Martin. "Realizing distributed computational laboratories"</b> International Journal of Parallel and Distributed Systems …, 1999
Versions Available: [ PDF ]

Patrick J. Moran, Chris Henze "Large field visualization with demand-driven calculation" Proceedings of the conference on Visualization '99 Pages: 27 - 33, 1999.
Versions Available: [ PDF ]

Jurriaan D. Mulder, Jarke J. van Wijk and Robert van Liere. "A survey of computational steering environments," Future Generation Computer Systems, Volume 15, Issue 1, Pages 119-129, February 12, 1999.
Versions Available: [ PDF ]
- also -
J.D. Mulder, J.J van Wijk, R. van Liere. "A Survey of Computational Steering Environment" SEN-R9816 September, 1998 CWI Centrum voor Wiskunde en Informatica REPORT RAPPORT ISSN 1386-369X
Versions Available: [ PDF ]

R.J. Allan. "Parallel Application Software on High Performance Computers," Survey of Computational Steering, Meta-computing and Network Information Tools, 1999.
Versions Available: [ PDF ]

A. Goel, C. Phanouriou, F.A. Kamke, C.J. Ribbens, C.A. Shaffer, L.T. Watson. "WBCSim: A Prototype Problem Solving Environment for Wood-Based Composites Simulations," Virginia Polytechnic Institute and State University Technical Report No. ncstrl.vatech_cs//TR-98-25, Computer Science, 1999.
Versions Available: [ PDF ]

Jeffrey S. Vetter. "Experiences using Computational Steering on Existing Scientific Applications,"</b> Proceedings of the Ninth SIAM Conference on Parallel Processing for Scientific Computing, San Antonio, Texas, USA, March 22-24, 1999
Versions Available: [ PDF ]

Randy Heiland, M. Pauline Baker. "Coprocessing: Experience with CUMULVS and pV3," NCSA University of Illinois, January 1999.
Versions Available: [ PDF ]

Peter Kacsuk, Ferenc Vajda. "Network-based Distributed Computing (Metacomputing)," ERCIM, 1999.
Versions Available: [ PDF ]

Juan Villacis, Madhusudhan Govindaraju, David Stern, Andrew Whitaker, Fabian Breg, Prafulla Deuskar, Benjamin Temko, Dennis Gannon, Randall Bramley. "CAT: A High Performance, Distributed Component Architecture Toolkit for the Grid," The Eighth IEEE International Symposium on High Performance Distributed Computing (HPDC), Redondo Beach, California, August 03-06, pp. 14, 1999.
Versions Available: [ PDF ]

[edit] 1998

Christopher Lloyd Elford. "Optimizing Parallel Input/Output Using Adaptive File System Policies", Doctoral Thesis, Graduate College of the University of Illinois at Urbana-Champaign, 1998
Versions Available: [ PDF ]

Greg Stephen Eisenhauer. "An object infrastructure for high-performance interactive applications" Thesis, Georgia Institute of Technology, May 1998.
Versions Available: [ PDF ]

Eileen Kraemer, Delbert Hart, and Gruia-Catalin Roman "Balancing Consistency and Lag in Transaction-Based Computational Steering" Proceedings of the Thirty-First Annual Hawaii International Conference on System Sciences-Volume 7, p. 137, 1998.
Versions Available: [ PDF ]

Kwan-Liu Ma, Diann Smith, Ming-Yun Shih, Han-Wei Shen. "Efficient Encoding and Rendering of Time-Varying Volume Data" NASA/CR-1998-208424 ICASE Report No. 98-22, June 1998
Versions Available: [ PDF ]

Beth Plale, Greg Eisenhauer, Karsten Schwan, Jeremy Heiner, Vernard Martin, and Jeffrey Vetter. "From interactive applications to distributed laboratories" IEEE Concurrency, pp. 78--90, 1998.
Versions Available: [ PDF ]

Christopher W. Harrop, Steven T. Hackstadt, Janice E. Cuny, Allen D. Malony, Laura S. Magde. "Supporting runtime tool interaction for parallel simulations" Conference on High Performance Networking and Computing, Proceedings of the 1998 ACM/IEEE conference on Supercomputing, 1998.
Versions Available: [ PDF ]

J.D. Mulder. "Computational Steering with Parametrized Geometric Objects," Future Generation Computer Systems, 1998.
- or -
J.D. Mulder and J.J. van Wijk. "3D computational steering with parametrized geometric objects," Technical Report No. CS-R9614, ISSN 0169-118X, 1996.

Steven T. Hackstadt, Christopher W. Harrop, and Allen D. Malony. "A Framework for Interacting with Distributed Programs and Data," Proceedings of the Seventh IEEE International Symposium on High Performance Distributed Computing (HPDC7), Chicago, IL, July 28-31, pp. 206-214, 1998. Also available as University of Oregon, Department of Computer and Information Science, Technical Report CIS-TR-98-02, June 1998.
Versions Available: [ PDF ]

Randy Heiland and M. Pauline Baker. "A Survey of Co-Processing Systems," NCSA University of Illinois Technical Report CEWES MSRC/PET TR/99-02, August 1998. Versions Available: [ PDF ]

Jurriaan D. Mulder, Robert van Liere, Jarke J. van Wijk, Robert G. Belleman, Jaap A. Kaandorp, Peter M. A. Sloot. "Computational Steering in the CAVE," Future Generation Computer Systems, Vol. 14, No. 3-4, pp. 199--207, 1998.
- also -
Jurriaan D. Mulder, Robert van Liere, Jarke J. van Wijk. "Computational Steering in the CAVE," Future Generation Computer Systems, 1998, SEN-R9818, ISSN 1386-369X
Versions Available: [ PDF ]

Uwe Wössner, Dirk Rantzau, Daniela Rainer. "Interactive Simulation Steering in VR and Handling of large Datasets," Virtual Environments 1998 / IEEE YUFORIC, Scientific Visualization Department, Federal High Performance Computing Center (HLRS), University of Stuttgart, Allmandring 30, 70550 Stuttgart, Germany
Versions Available: [ PDF ]

A.J. Winfield. "A Virtual Laboratory Notebook for Simulation Models" Proceedings, Pacific Symposium on Biocomputing, 1998.
Versions Available: [ PDF ]


David M. Beazley, Peter S. Lomdahl "Extensible Message Passing Application Development and Debugging with Python" 11th International Parallel Processing Symposium (IPPS '97), p.650, 1997. (psf restricted, could not verify.)

Andrew Lewis, David Abramson, Rod Simpson. "Parallel non-linear optimization: towards the design of a decision support system for air quality management" Proceedings of the 1997 ACM/IEEE conference on Supercomputing P. 1-12, 1997. (SCIRun only mentioned in title of cited paper)
Versions Available: [ PDF ]

Tzi-Cker Chiueh, et al. "A Parallel Pipelined Renderer for Time-Varying Volume Data," NASA/CR-97-206275, ICASE Report No. 97-70, Institute for Computer Applications in Science and Engineering, NASA Langley Research Center, Hampton, VA, 1997.
Versions Available: [ PDF ]

Are Magnus Bruaset, Hans Petter Langtangen. "Diffpack: A Software Environment for Rapid Protoptying of PDE Solvers," Edited by A. Sydow, In the proceedings of the 15th IMACS World Congress on Scientific Computation, Modeling and Applied Mathematics, Berlin, Germany, vol. 4, pp. 553-558, 1997.

Rick Stevens, Paul Woodward, Tom DeFanti, Charlie Catlett. "From the I-WAY to the National Technology Grid" In Communications of the ACM archive, Vol. 40, No. 11, pp. 50--60, November 1997.
Versions Available: [ PDF ]

J. S. Vetter. "Computational steering annotated bibliography" ACM SIGPLAN Notices, Volume 32, Issue 6, Pages: 40-44, June 1997. [70]

Jeffrey Vetter, Karsten Schwan. "High Performance Computational Steering of Physical Simulations" 11th International Parallel Processing Symposium (IPPS '97) Apr 01-04, p.128, 1997. (Hit as citing "SCIRun: A Scientific Programming Environment for Computational Steering"</b>, could not verify.)


Tara M. Madhyastha, Christopher L. Elford, Daniel A. Reed. "Optimizing Input/Output Using Adaptive File System Policies" Proceedings of the Fifth Goddard Conference on Mass Storage, 1996. (cites "SCIRun: A Scientific Programming Environment for Computational Steering" pulication info unclear.)
Versions Available: [ PDF ]

J Vetter, K Schwan. "Models for Computational Steering" Third International Conference on Configurable Distributed... 1996.
Versions Available: [ PS ]

David M. Beazley, Peter S. Lomdahl. "Lightweight computational steering of very large scale molecular dynamics simulations" Proceedings of the 1996 ACM/IEEE conference on Supercomputing Article No. 50, 1996.
Versions Available: [ PDF ]


Christopher C. Chang, Adam Greenspan, M. Erick Gershwin. "Osteonecrosis: Current perspectives on pathogenesis and treatment" Seminars in Arthritis and Rheumatism, Volume 23, Issue 1, August 1993, Pages 47-69


Bruce Lucas, Gregory D. Abram, Nancy S. Collins, David A. Epstein, Donna L. Gresh, Kevin P. McAuliffe. "An Architecture for a Scientific Visualization System" Proceedings of the 3rd conference on Visualization '92, pp. 107-114, 1992.
Note: This came up as a hit from Google Scholar searching for SCIRun but the PDF does not appear to contain a reference to it.
Versions Available: [ PDF ]

Unknown Publication Status or Year

(Russian citation)

Thomas Schultz, Bernhard Burgeth, and Joachim Weickert. "Flexible Segmentation and Smoothing of DT-MRI Fields through a Customizable Structure Tensor" [71]

N.K. Suresh Kumara, M. Ramasubba Reddya. "Non-Invasive Electrical Imaging of Heart: A Patient Specific Approach" Indian Institute of Technology Madras, India. [72]

Steinstraeter, Olaf, Sillekens, Stephanie, Junghoefer, Markus, Burger, Martin, Wolters, Carsten. "Sensitivity of beamformer source analysis to deficiencies in forward modeling". [73]

"'In Silico' Simulation of Biological Processes" Reference on page 213. (section missing from web version) [74]

Mario Cannataro, Carmela Comito, Antonio Congiusta, Gianluigi Folino, Carlo Mastroianni, Andrea Pugliese, Giandomenico Spezzano, Domenico Talia, Pierangelo Veltri. "FIRB "Grid.it" WP8 Working Paper: Grid-based PSE Toolkits for Multidisciplinary Applications".
Versions Available: [ PDF ]

Nicolas Dedual, Buffy Johnson, George Chen. "Visualization of 4D Computed Tomography Datasets" In Parallel Processing for Scientific Computing (By Michael A. Heroux, Padma Raghavan, Horst D. Simon), Ch. 12. PDF

William D. Gropp and Andrew Lumsdaine. "Parallel Tools and Environments: A Survey" [75]

Zhou Jun, Yukio Umetani. "Development of Grid-Enabled Problem Solving Environment for PDE Based Applications" (biopse reference)
Versions Available: [ PDF ]

Zhou Jun, Yukio Umetani "GridPSi: A Grid-Enabled Problem Solving Environment for Physical Simulation Applications" [76]

Gregor von Laszewski and Mike Hategan. "Grid Workflow - An Integrated Approach" Proposal for a bookchapter
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Kai Li, Allen D. Malony, Robert Bell, and Sameer Shende. "A Framework for Online Performance Analysis and Visualization of Large-Scale Parallel Applications"
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Nasim Mahmood, Guosheng Deng, and James C. Browne. "Compositional Development of Parallel Programs" (publication info not found)
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Sascha Mohrs. "Bioelectric Field Simulation and Visualization: Anisotropic Conductivities for the Skull and Brain White Matter" Masters Thesis. FRIEDRICH-ALEXANDER-UNIVERSITAT ERLANGEN-NURNBERG INSTITUT FUR INFORMATIK (MATHEMATISCHE MASCHINEN UND DATENVERARBEITUNG) [77]

Anna Morajko, Oleg Morajko, Josep Jorba, Tomàs Margalef, Emilio Luque "Automatic performance analysis and dynamic tuning of distributed applications" (publication info unclear).
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Diego Puppin, Fabrizio Silvestri, Domenico Laforenza. "Component Metadata Management and Publication for the Grid" (publication info not clear)
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Nanbor Wang and Johan Carlsson. "Distributed Components for Integrating Large-scale HPC Applications". Tech-X Corporation. [78]

Feng Xian. "Computational Steering Systems in Grid Computing Environments" Department of Computer Science and Engineering University of Nebraska Lincoln.
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