Paper Info
Title
Real-time multi-scale brain data acquisition, assembly, and analysis using an end-to-end OptIPuter
Abstract
At iGrid 2005 we demonstrated the transparent operation of a biology experiment on a test-bed of globally distributed visualization, storage, computational, and network resources. These resources were bundled into a unified platform by utilizing dynamic lambda allocation, high bandwidth protocols for optical networks, a Distributed Virtual Computer (DVC) [N. Taesombut, A. Chien, Distributed Virtual Computer (DVC): Simplifying the development of high performance grid applications, in: Proceedings of the Workshop on Grids and Advanced Networks, GAN 04, Chicago, IL, April 2004 (held in conjunction with the IEEE Cluster Computing and the Grid (CCGrid2004) Conference)], and applications running over the Scalable Adaptive Graphics Environment (SAGE) [L. Renambot, A. Rao, R. Singh, B. Jeong, N. Krishnaprasad, V. Vishwanath, V. Chandrasekhar, N. Schwarz, A. Spale, C. Zhang, G. Goldman, J. Leigh, A. Johnson, SAGE: The Scalable Adaptive Graphics Environment, in: Proceedings of WACE 2004, 23-24 September 2004, Nice, France, 2004]. Using these layered technologies we ran a multi-scale correlated microscopy experiment [M.E. Maryann, T.J. Deerinck, N. Yamada, E. Bushong, H. Ellisman Mark, Correlated 3D light and electron microscopy: Use of high voltage electron microscopy and electron tomography for imaging large biological structures, Journal of Histotechnology 23 (3) (2000) 261-270], where biologists imaged samples with scales ranging from 20X to 5000X in progressively increasing magnification. This allows the scientists to zoom in from entire complex systems such as a rat cerebellum to individual spiny dendrites. The images used spanned multiple modalities of imaging and specimen preparation, thus providing context at every level and allowing the scientists to better understand the biological structures. This demonstration attempts to define an infrastructure based on OptIPuter components which would aid the development and design of collaborative scientific experiments, applications and test-beds and allow the biologists to effectively use the high resolution real estate of tiled displays.
Year
DOI
Venue
2006
10.1016/j.future.2006.03.017
Future Generation Comp. Syst.
Keywords
Field
DocType
scientific visualization,tile displays,telescience,scalable adaptive graphics environment,end-to-end optiputer,multi-scale correlated microscopy,graphics clusters,hdtv streaming,n. schwarz,high resolution,high bandwidth protocol,n. yamada,high voltage electron microscopy,remote instrumentation,montage images,n. taesombut,real-time multi-scale brain data,n. krishnaprasad,virtual computer,high performance grid application,tiled displays,optical networks,test bed,data acquisition,real estate,electron microscopy,electron tomography,high voltage,cluster computing,real time,complex system
Graphics,Virtual machine,Computer graphics (images),Visualization,Computer science,Zoom,Scientific visualization,Computer cluster,Grid,Scalability,Distributed computing
Journal
Volume
Issue
ISSN
22
8
Future Generation Computer Systems
Citations 
PageRank 
References 
5
0.45
9
Authors
15
Name
Order
Citations
PageRank
Rajvikram Singh1636.92
Nicholas Schwarz2374.01
Nut Taesombut3433.60
David Lee450.45
Byungil Jeong513711.93
Luc Renambot625726.73
Abel W. Lin710214.42
Ruth West834526.43
Hiromu Otsuka950.45
Sei Naito106617.95
Steven T. Peltier11609.23
Maryann E. Martone1253470.57
Kazunori Nozaki13228.46
Jason Leigh14909111.85
Mark Ellisman1527334.31