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Takehiro Shimoda

dblp:135/1114 · DBLP profile ↗
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1ranked-venue papers
0as first author
0since 2021 · last 2014
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%
Computer architecture, parallel and distributed computing, and storage systems
1 paper
GPUs and heterogeneous computing · 100%

Topics — the 4 heaviest of 4, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › protein structure prediction › protein-protein docking
FFT-based docking		 0.212014
MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers · Bioinform. 2014
Bioinformatics and computational biology › protein structure prediction
protein-protein docking		 0.212014
MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers · Bioinform. 2014
GPUs and heterogeneous computing
GPU computing		 0.112014
MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers · Bioinform. 2014
GPUs and heterogeneous computing
heterogeneous supercomputing		 0.112014
MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers · Bioinform. 2014

Methods — techniques the papers use, named apart from their topics

fast fourier transform · 0.4OpenMPI · 0.4CUDA · 0.4
YearPublicationVenuePosition
2014 MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers
abstract
SUMMARY: The application of protein-protein docking in large-scale interactome analysis is a major challenge in structural bioinformatics and requires huge computing resources. In this work, we present MEGADOCK 4.0, an FFT-based docking software that makes extensive use of recent heterogeneous supercomputers and shows powerful, scalable performance of >97% strong scaling. AVAILABILITY AND IMPLEMENTATION: MEGADOCK 4.0 is written in C++ with OpenMPI and NVIDIA CUDA 5.0 (or later) and is freely available to all academic and non-profit users at: http://www.bi.cs.titech.ac.jp/megadock. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.
Masahito Ohue, Takehiro Shimoda, Shuji Suzuki, Yuri Matsuzaki, Takashi Ishida 0002, Yutaka Akiyama
 Bioinform.2