Efficient fluorescence microscopy analysis over a volunteer grid/cloud infrastructure
This work presents a distributed computing algorithm over volunteer grid/cloud computing systems for Fluorescence Correlation Spectroscopy, a computational biology technique for obtaining quantitative information about the motion of molecules in living cells. High performance computing is needed to...
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| Otros Autores: | , , , , , , , , , , , , , |
| Formato: | Acta de conferencia Capítulo de libro |
| Lenguaje: | Inglés |
| Publicado: |
Springer Verlag
2014
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| Acceso en línea: | Registro en Scopus Handle Registro en la Biblioteca Digital |
| Aporte de: | Registro referencial: Solicitar el recurso aquí |
| LEADER | 07889caa a22009857a 4500 | ||
|---|---|---|---|
| 001 | PAPER-23932 | ||
| 003 | AR-BaUEN | ||
| 005 | 20230518205542.0 | ||
| 008 | 190411s2014 xx ||||fo|||| 00| 0 eng|d | ||
| 024 | 7 | |2 scopus |a 2-s2.0-84908610043 | |
| 040 | |a Scopus |b spa |c AR-BaUEN |d AR-BaUEN | ||
| 100 | 1 | |a Da Silva, M. | |
| 245 | 1 | 0 | |a Efficient fluorescence microscopy analysis over a volunteer grid/cloud infrastructure |
| 260 | |b Springer Verlag |c 2014 | ||
| 270 | 1 | 0 | |m Da Silva, M.; Universidad de la RepúblicaUruguay |
| 506 | |2 openaire |e Política editorial | ||
| 504 | |a Anderson, D., BOINC: A system for public-resource computing and storage (2004) 5th Int. Workshop on Grid Computing, pp. 4-10. , Pittsburgh, USA | ||
| 504 | |a Anderson, D., Fedak, G., The computational and storage potential of volunteer computing (2006) 6th Int. Symp. on Cluster Computing and the Grid, pp. 73-80 | ||
| 504 | |a Bartol, T., Land, B., Salpeter, E., Salpeter, M., Monte carlo simulation of miniature endplate current generation in the vertebrate neuromuscular junction (1991) Biophys J, 59 (6), pp. 1290-1307 | ||
| 504 | |a Buyya, R., Broberg, J., Goscinski, A.M., (2011) Cloud Computing Principles and Paradigms, , Wiley Publishing | ||
| 504 | |a Cirne, W., Brasileiro, F., Andrade, N., Costa, L., Andrade, A., Novaes, R., Mowbray, M., Labs of the world, unite! (2006) Journal of Grid Computing, 4 (3), pp. 225-246 | ||
| 504 | |a Dix, J., Hom, E., Verkman, A., Fluorescence Correlation Spectroscopy Simulations of Photophysical Phenomena and Molecular Interactions: A Molecular Dynamics- Monte Carlo Approach (2006) J. Phys. Chem. B, 110 (4), pp. 1896-1906 | ||
| 504 | |a Elson, E.L., Fluorescence correlation spectroscopy: Past, present, future (2011) Biophys J, 101 (12), pp. 2855-2870 | ||
| 504 | |a Foster, I., Zhao, Y., Raicu, I., Lu, S., Cloud Computing and Grid Computing 360- Degree Compared (2008) Grid Computing Environments Workshop, pp. 1-10 | ||
| 504 | |a Haustein, E., Schwille, P., Ultrasensitive investigations of biological systems by fluorescence correlation spectroscopy (2003) Methods, 29 (2), pp. 153-166 | ||
| 504 | |a Joseph, J., Fellenstein, C., (2003) Grid Computing, , Prentice Hall PTR, Upper Saddle River | ||
| 504 | |a Kerr, R., Bartol, T., Kaminsky, B., Dittrich, M., Chang, J., Baden, S., Sejnowski, T., Stiles, J., Fast Monte Carlo simulation methods for biological reaction-diffusion systems in solution and on surfaces (2008) SIAM Journal on Scientific Computing, 30 (6), pp. 3126-3149 | ||
| 504 | |a Lidke, D.S., Wilson, B.S., Caught in the act: Quantifying protein behaviour in living cells (2009) Trends in Cell Biology, 19 (11), pp. 566-574 | ||
| 504 | |a Lippincott, J., Altan, N., Patterson, G., Photobleaching and photoactivation: Following protein dynamics in living cells (2003) Nat. Cell Biol. Suppl | ||
| 504 | |a Martínez, E., Marian, J., Kalos, M., Perlado, J., Synchronous parallel kinetic Monte Carlo for continuum diffusion-reaction systems (2008) J. Comp. Phys, 227 (8), pp. 3804-3823 | ||
| 504 | |a Meriney, S., Dittrich, M., Organization and function of transmitter release sites at the neuromuscular junction (2013) The Journal of Physiology, 591 (13), pp. 3159-3165 | ||
| 504 | |a Molnár, F., Izsák, F., Mészáros, R., Lagzi, I., Simulation of reaction-diffusion processes in three dimensions using CUDA (2011) Chemometrics and Intelligent Laboratory Systems, 108 (1), pp. 76-85 | ||
| 504 | |a Nov, O., Anderson, D., Arazy, O., Volunteer computing: A model of the factors determining contribution to community-based scientific research (2010) 19th Int. Conf. on World Wide Web, pp. 741-750 | ||
| 504 | |a Stiles, J.R., Bartol, T.M., (2001) Monte Carlo methods for simulating realistic synaptic microphysiology using MCell, ch, 4, pp. 87-127. , CRC Press | ||
| 504 | |a Stiles, J.R., Van Helden, D., Bartol, T.M., Salpeter, E.E., Salpeter, M.M., Miniature endplate current rise times less than 100 microseconds from improved dual recordings can be modeled with passive acetylcholine diffusion from a synaptic vesicle (1996) Proc. Natl. Acad. Sci. USA, 93 (12), pp. 5747-5752 | ||
| 504 | |a Van Zon, J., Ten Wolde, P., Simulating biochemical networks at the particle level and in time and space: Green’s function reaction dynamics (2005) Phys. Rev. Lett, 94 (12), p. 128103A4 - Intel; NVidia; Seagate; Siasa | ||
| 520 | 3 | |a This work presents a distributed computing algorithm over volunteer grid/cloud computing systems for Fluorescence Correlation Spectroscopy, a computational biology technique for obtaining quantitative information about the motion of molecules in living cells. High performance computing is needed to cope with large computing times when performing complex simulations, and volunteer grid/cloud computing emerges as a powerful paradigm to solve this kind of problems by coordinately using many computing resources distributed around the world. The proposed algorithm applies a domain decomposition technique for performing many simulations using different cell models at the same time. The experimental evaluation performed on a volunteer distributing computing infrastructure demonstrates that efficient execution times are obtained when using OurGrid middleware. © Springer-Verlag Berlin Heidelberg 2014. |l eng | |
| 536 | |a Detalles de la financiación: Consejo Nacional de Investigaciones Científicas y Técnicas, CONICET, PIP GI 11220110100379 | ||
| 593 | |a Universidad de la República, Uruguay | ||
| 593 | |a Departamento de Computación, Universidad de Buenos Aires, Argentina | ||
| 593 | |a Departamento de Química Biológica-IQUIBICEN, Universidad de Buenos Aires, Argentina | ||
| 593 | |a Universidad Veracruzana, Mexico | ||
| 690 | 1 | 0 | |a FLUORESCENCE ANALYSIS |
| 690 | 1 | 0 | |a GRID/CLOUD COMPUTING |
| 690 | 1 | 0 | |a VOLUNTEER COMPUTING |
| 690 | 1 | 0 | |a ALGORITHMS |
| 690 | 1 | 0 | |a BIOINFORMATICS |
| 690 | 1 | 0 | |a COMPUTER SIMULATION |
| 690 | 1 | 0 | |a DOMAIN DECOMPOSITION METHODS |
| 690 | 1 | 0 | |a FLUORESCENCE |
| 690 | 1 | 0 | |a FLUORESCENCE MICROSCOPY |
| 690 | 1 | 0 | |a FLUORESCENCE SPECTROSCOPY |
| 690 | 1 | 0 | |a MIDDLEWARE |
| 690 | 1 | 0 | |a SPECTROSCOPIC ANALYSIS |
| 690 | 1 | 0 | |a DOMAIN DECOMPOSITION TECHNIQUES |
| 690 | 1 | 0 | |a EXPERIMENTAL EVALUATION |
| 690 | 1 | 0 | |a FLUORESCENCE ANALYSIS |
| 690 | 1 | 0 | |a FLUORESCENCE CORRELATION SPECTROSCOPY |
| 690 | 1 | 0 | |a GRID/CLOUD COMPUTING |
| 690 | 1 | 0 | |a HIGH PERFORMANCE COMPUTING |
| 690 | 1 | 0 | |a QUANTITATIVE INFORMATION |
| 690 | 1 | 0 | |a VOLUNTEER COMPUTING |
| 690 | 1 | 0 | |a DISTRIBUTED COMPUTER SYSTEMS |
| 700 | 1 | |a Nesmachnow, S. | |
| 700 | 1 | |a Geier, M. | |
| 700 | 1 | |a Mocskos, E. | |
| 700 | 1 | |a Angiolini, J. | |
| 700 | 1 | |a Levi, V. | |
| 700 | 1 | |a Cristobal, A. | |
| 700 | 1 | |a Storti M. | |
| 700 | 1 | |a Hernandez G. | |
| 700 | 1 | |a Perez-Acle T. | |
| 700 | 1 | |a Vazquez M. | |
| 700 | 1 | |a Hernandez C.J.B. | |
| 700 | 1 | |a Diaz G. | |
| 700 | 1 | |a Garino C.G. | |
| 700 | 1 | |a Nesmachnow S. | |
| 711 | 2 | |d 20 October 2014 through 22 October 2014 |g Código de la conferencia: 109059 | |
| 773 | 0 | |d Springer Verlag, 2014 |g v. 485 |h pp. 113-127 |p Commun. Comput. Info. Sci. |n Communications in Computer and Information Science |x 18650929 |z 9783662454824 |t 1st High-Performance Computing Latin America Community, HPCLATAM-CLCAR 2014 and Latin American Joint Conference, CARLA 2014 | |
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| 856 | 4 | 0 | |u https://hdl.handle.net/20.500.12110/paper_18650929_v485_n_p113_DaSilva |y Handle |
| 856 | 4 | 0 | |u https://bibliotecadigital.exactas.uba.ar/collection/paper/document/paper_18650929_v485_n_p113_DaSilva |y Registro en la Biblioteca Digital |
| 961 | |a paper_18650929_v485_n_p113_DaSilva |b paper |c PE | ||
| 962 | |a info:eu-repo/semantics/article |a info:ar-repo/semantics/artículo |b info:eu-repo/semantics/publishedVersion | ||
| 999 | |c 84885 | ||