| Presentation | 2013/6/20 Acceleration of Tandem Mass Spectra Analysis Software CoCoozo using Multi-core CPUs and Graphics Processing Units YASUFUMI OBATA, TAKASHI ISHIDA, TOHRU NATSUME, YUTAKA AKIYAMA, |
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| PDF Download Page | PDF download Page Link |
| Abstract(in Japanese) | (See Japanese page) |
| Abstract(in English) | Tandem mass spectrometry, a method involving multiple steps of mass spectral selection, is widely used in various biological fields. In recent years, steady improvements have been made with respect to speed, and the number of protein databases available for analysis has rapidly increased. Consequently, computational analysis has become the bottleneck in tandem mass spectrometry. To overcome this problem, we attempted to improve the tandem mass spectrometry analysis software CoCoozo. To accelerate the program, we improved the algorithm and also incorporated utilization of multi-core CPU and GPGPU. As a result, when all mass spectral data files had precursor data, we achieved 8.9-fold speedups compared with the original software. In addition, in the case of no precursor data, by using a 12-core CPU and a GPU card we achieved 18.1-fold speedups compared with the original software. |
| Keyword(in Japanese) | (See Japanese page) |
| Keyword(in English) | Mass Spectrometry / MS/MS / CoCoozo / Multi-threading / GPGPU |
| Paper # | Vol.2013-BIO-34 No.13 |
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| Conference Information | |
| Committee | NC |
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| Conference Date | 2013/6/20(1days) |
| Place (in Japanese) | (See Japanese page) |
| Place (in English) | |
| Topics (in Japanese) | (See Japanese page) |
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| Paper Information | |
| Registration To | Neurocomputing (NC) |
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| Language | JPN |
| Title (in Japanese) | (See Japanese page) |
| Sub Title (in Japanese) | (See Japanese page) |
| Title (in English) | Acceleration of Tandem Mass Spectra Analysis Software CoCoozo using Multi-core CPUs and Graphics Processing Units |
| Sub Title (in English) | |
| Keyword(1) | Mass Spectrometry |
| Keyword(2) | MS/MS |
| Keyword(3) | CoCoozo |
| Keyword(4) | Multi-threading |
| Keyword(5) | GPGPU |
| 1st Author's Name | YASUFUMI OBATA |
| 1st Author's Affiliation | Department of Computer Science, Graduate School of Information Science and Engineering, Tokyo Institute of Technology() |
| 2nd Author's Name | TAKASHI ISHIDA |
| 2nd Author's Affiliation | Department of Computer Science, Graduate School of Information Science and Engineering, Tokyo Institute of Technology |
| 3rd Author's Name | TOHRU NATSUME |
| 3rd Author's Affiliation | Molecular Profiling Research Center for Drug Discovery, National Institute of Advanced Industrial Science and Technology |
| 4th Author's Name | YUTAKA AKIYAMA |
| 4th Author's Affiliation | Department of Computer Science, Graduate School of Information Science and Engineering, Tokyo Institute of Technology |
| Date | 2013/6/20 |
| Paper # | Vol.2013-BIO-34 No.13 |
| Volume (vol) | vol.113 |
| Number (no) | 111 |
| Page | pp.pp.- |
| #Pages | 8 |
| Date of Issue | |