Yutaka Akiyama
Orcid: 0000-0003-2863-8703
According to our database1,
Yutaka Akiyama
authored at least 56 papers
between 1989 and 2023.
Collaborative distances:
Collaborative distances:
Timeline
Legend:
Book In proceedings Article PhD thesis Dataset OtherLinks
On csauthors.net:
Bibliography
2023
J. Chem. Inf. Model., April, 2023
2022
Lipid Composition Is Critical for Accurate Membrane Permeability Prediction of Cyclic Peptides by Molecular Dynamics Simulations.
J. Chem. Inf. Model., 2022
Plasma protein binding prediction focusing on residue-level features and circularity of cyclic peptides by deep learning.
Bioinform., 2022
2021
Large-Scale Membrane Permeability Prediction of Cyclic Peptides Crossing a Lipid Bilayer Based on Enhanced Sampling Molecular Dynamics Simulations.
J. Chem. Inf. Model., 2021
MEGADOCK-GUI: a GUI-based complete cross-docking tool for exploring protein-protein interactions.
CoRR, 2021
2020
Development of Computational Pipeline Software for Genome/Exome Analysis on the K Computer.
Supercomput. Front. Innov., 2020
Multiple HPC Environments-Aware Container Image Configuration Workflow for Large-Scale All-to-All Protein-Protein Docking Calculations.
Proceedings of the Supercomputing Frontiers - 6th Asian Conference, 2020
2019
Molecular activity prediction using graph convolutional deep neural network considering distance on a molecular graph.
CoRR, 2019
Proceedings of the 18th International Conference on Mobile and Ubiquitous Multimedia, 2019
Parallelized Pipeline for Whole Genome Shotgun Metagenomics with GHOSTZ-GPU and MEGAN.
Proceedings of the 19th IEEE International Conference on Bioinformatics and Bioengineering, 2019
2018
Optimization of memory use of fragment extension-based protein-ligand docking with an original fast minimum cost flow algorithm.
Comput. Biol. Chem., 2018
Multiple grid arrangement improves ligand docking with unknown binding sites: Application to the inverse docking problem.
Comput. Biol. Chem., 2018
Computational prediction of plasma protein binding of cyclic peptides from small molecule experimental data using sparse modeling techniques.
BMC Bioinform., 2018
MEGADOCK-Web: an integrated database of high-throughput structure-based protein-protein interaction predictions.
BMC Bioinform., 2018
PKRank: a novel learning-to-rank method for ligand-based virtual screening using pairwise kernel and RankSVM.
Artif. Life Robotics, 2018
2017
Bioinform., 2017
Link Mining for Kernel-Based Compound-Protein Interaction Predictions Using a Chemogenomics Approach.
Proceedings of the Intelligent Computing Theories and Application, 2017
Efficient hyperparameter optimization by using Bayesian optimization for drug-target interaction prediction.
Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017
2015
Protein-protein docking on hardware accelerators: comparison of GPU and MIC architectures.
BMC Syst. Biol., 2015
2014
Extreme Big Data (EBD): Next Generation Big Data Infrastructure Technologies Towards Yottabyte/Year.
Supercomput. Front. Innov., 2014
MEGADOCK 4.0: an ultra-high-performance protein-protein docking software for heterogeneous supercomputers.
Bioinform., 2014
Proceedings of the Intelligent Computing in Bioinformatics - 10th International Conference, 2014
2013
MEGADOCK 3.0: a high-performance protein-protein interaction prediction software using hybrid parallel computing for petascale supercomputing environments.
Source Code Biol. Medicine, 2013
BMC Bioinform., 2013
The MEGADOCK project: Ultra-high-speed protein-protein interaction prediction tools on supercomputing environments.
Proceedings of the ACM Conference on Bioinformatics, 2013
Proceedings of the ACM Conference on Bioinformatics, 2013
Improvement of Protein-Protein Interaction Prediction by Integrating Template-Based and Template-Free Protein Docking.
Proceedings of the ACM Conference on Bioinformatics, 2013
2012
An Ultra-Fast Computing Pipeline for Metagenome Analysis with Next-Generation DNA Sequencers.
Proceedings of the 2012 SC Companion: High Performance Computing, 2012
Improvement of the Protein-Protein Docking Prediction by Introducing a Simple Hydrophobic Interaction Model: An Application to Interaction Pathway Analysis.
Proceedings of the Pattern Recognition in Bioinformatics, 2012
Proceedings of the Emerging Intelligent Computing Technology and Applications, 2012
2011
PDN impedance analysis of TSV-decoupling capacitor embedded Silicon interposer for 3D-integrated CMOS image sensor system.
Proceedings of the 2011 IEEE International 3D Systems Integration Conference (3DIC), Osaka, Japan, January 31, 2011
2010
Design and Simulation of Hybrid de novo DNA Sequence Assembly for Large Eukaryotic Genomes.
Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, 2010
2009
<i>In silico</i> Screening of protein-protein Interactions with All-to-All Rigid docking and Clustering: an Application to Pathway Analysis.
J. Bioinform. Comput. Biol., 2009
2008
Development of an Affinity Evaluation and Prediction System by Using the Shape complementarity Characteristic between proteins.
J. Bioinform. Comput. Biol., 2008
2007
Optimization and evaluation of parallel molecular dynamics simulation on blue gene/L.
Proceedings of the IASTED International Conference on Parallel and Distributed Computing and Networks, 2007
Proceedings of the Parallel and Distributed Processing and Applications, 2007
2004
Bioinform., 2004
2003
PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003.
Nucleic Acids Res., 2003
Distributed Genetic Algorithm for Inference of Biological Scale-Free Network Structure.
Proceedings of the High Performance Computing, 5th International Symposium, 2003
Proceedings of the High Performance Computing, 5th International Symposium, 2003
Generation of 3D solid model from 3DX multi image micro CT (methods and application).
Proceedings of the CARS 2003. Computer Assisted Radiology and Surgery. Proceedings of the 17th International Congress and Exhibition, 2003
2002
IEEE Intell. Syst., 2002
2001
PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB).
Nucleic Acids Res., 2001
2000
Quick selection of representative protein chain sets based on customizable requirements.
Bioinform., 2000
Hierarchical Approach to Parallel Tree Search for Protein Conformational Analysis.
Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, 2000
1999
ESCAPE: Parallel Tree Search System for Conformational Analysis of Peptides.
Proceedings of the International Conference on Parallel and Distributed Processing Techniques and Applications, 1999
Proceedings of the High Performance Computing, Second International Symposium, 1999
1997
Proceedings of the 5th International Conference on Intelligent Systems for Molecular Biology, 1997
Proceedings of the High Performance Computing, International Symposium, 1997
Proceedings of the High Performance Computing, International Symposium, 1997
1989
Proceedings of the IEEE International Workshop on Tools for Artificial Intelligence: Architectures, 1989