Case Study of a Functional Genomics Application for an FPGA-Based Coprocessor
作者： Tom Van Court , Martin C. Herbordt , Richard J. Barton
DOI: 10.1007/978-3-540-45234-8_36
关键词:
摘要: Although microarrays are already having a tremendous impact on biomedical science, they still present great computational challenges. We examine particular problem involving the computation of linear regressions large number vector combinations in high-dimensional parameter space, that was found to be virtually intractable PC cluster. observe characteristics this map particularly well FPGAs and confirm with an implementation results 1000-fold speed-up over serial implementation. Other contributions involve data routing structure, analysis bit-width allocation, handling missing data. Since is representative many functional genomics, part overall significance work it points potential new area applicability for FPGA coprocessors.
core.ac.uk
springer.com
sci-hub.st 参考文章(18)
Steven A. Guccione, Eric Keller, Gene Matching Using JBits field programmable logic and applications. pp. 1168- 1171 ,(2002) , 10.1007/3-540-46117-5_133
E. C. Gunther, D. J. Stone, R. W. Gerwien, P. Bento, M. P. Heyes, Prediction of clinical drug efficacy by classification of drug-induced genomic expression profiles in vitro Proceedings of the National Academy of Sciences of the United States of America. ,vol. 100, pp. 9608- 9613 ,(2003) , 10.1073/PNAS.1632587100
Alan Hartman, The fundamental construction for 3-designs Discrete Mathematics. ,vol. 124, pp. 107- 132 ,(1994) , 10.1016/0012-365X(92)00055-V
Atul J. Butte, Alvin Kho, Isaac S. Kohane, Microarrays for an Integrative Genomics ,(2002)
Roderick JA Little, Donald B Rubin, None, Statistical Analysis with Missing Data ,(1987)
E. Hansen, James Vandergraft, Topics in Interval Analysis ,(1969)
U. Alon, N. Barkai, D. A. Notterman, K. Gish, S. Ybarra, D. Mack, A. J. Levine, Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays Proceedings of the National Academy of Sciences of the United States of America. ,vol. 96, pp. 6745- 6750 ,(1999) , 10.1073/PNAS.96.12.6745
Charles M. Perou, Therese Sørlie, Michael B. Eisen, Matt van de Rijn, Stefanie S. Jeffrey, Christian A. Rees, Jonathan R. Pollack, Douglas T. Ross, Hilde Johnsen, Lars A. Akslen, Øystein Fluge, Alexander Pergamenschikov, Cheryl Williams, Shirley X. Zhu, Per E. Lønning, Anne-Lise Børresen-Dale, Patrick O. Brown, David Botstein, Molecular portraits of human breast tumours Nature. ,vol. 406, pp. 747- 752 ,(2000) , 10.1038/35021093
G.A. Constantinides, P.Y.K. Cheung, W. Luk, Optimum wordlength allocation field-programmable custom computing machines. pp. 219- 228 ,(2002) , 10.1109/FPGA.2002.1106676
D. W. Wichern, R. A. Johnson, Applied Multivariate Statistical Analysis ,(1982)