Masahito Ohue

Yutaka Akiyama, Masahito Ohue, Tomohiro Ban, 2017, 2017 IEEE 7th International Conference on Computational Advances in Bio and Medical Sciences (ICCABS).

Megadock-Web: An Integrated Database of High-Throughput Structure-Based Protein-Protein Interaction Predictions

Yuri Matsuzaki, Yutaka Akiyama, Takanori Hayashi, 2019 .

Learning-to-rank technique based on ignoring meaningless ranking orders between compounds.

Yutaka Akiyama, Masahito Ohue, Shogo D Suzuki, 2019, Journal of molecular graphics & modelling.

Community-wide assessment of protein-interface modeling suggests improvements to design methodology.

Kengo Kinoshita, Haruki Nakamura, Genki Terashi, 2011, Journal of molecular biology.

High-performance cloud computing for exhaustive protein-protein docking pdf

Yutaka Akiyama, Masahito Ohue, Kento Aoyama, 2020, ArXiv.

Parallelized Pipeline for Whole Genome Shotgun Metagenomics with GHOSTZ-GPU and MEGAN

Yutaka Akiyama, Masahito Ohue, Marina Yamasawa, 2019, 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE).

The MEGADOCK project: Ultra-high-speed protein-protein interaction prediction tools on supercomputing environments

Yuri Matsuzaki, Takayuki Fujiwara, Takashi Ishida, 2013, BCB.

Computational prediction of plasma protein binding of cyclic peptides from small molecule experimental data using sparse modeling techniques

Yutaka Akiyama, Masahito Ohue, Keisuke Yanagisawa, 2018, BMC Bioinformatics.

Highly precise protein-protein interaction prediction based on consensus between template-based and de novo docking methods

Yuri Matsuzaki, Takashi Ishida, Yutaka Akiyama, 2013, BMC Proceedings.

Rigid-Docking Approaches to Explore Protein-Protein Interaction Space.

Yuri Matsuzaki, Yutaka Akiyama, Masahito Ohue, 2017, Advances in biochemical engineering/biotechnology.

MEGADOCK 3.0: a high-performance protein-protein interaction prediction software using hybrid parallel computing for petascale supercomputing environments

Toshiyuki Sato, Yuri Matsuzaki, Takashi Ishida, 2013, Source Code for Biology and Medicine.

Optimization of memory use of fragment extension-based protein-ligand docking with an original fast minimum cost flow algorithm

Yutaka Akiyama, Masahito Ohue, Keisuke Yanagisawa, 2018, Comput. Biol. Chem..

Rescoring ensembles of protein-protein docking poses using consensus approaches

Yuri Matsuzaki, Takanori Hayashi, Juliette Martin, 2020, bioRxiv.

Re-Docking Scheme to Explore Docking Search Space by using Interaction Profiles

Yuri Matsuzaki, Yutaka Akiyama, Masahito Ohue, 2014 .

MEGADOCK: An All-to-All Protein-Protein Interaction Prediction System Using Tertiary Structure Data

Yuri Matsuzaki, Takashi Ishida, Yutaka Akiyama, 2013, Protein and peptide letters.

MEGADOCK-GPU: Acceleration of Protein-Protein Docking Calculation on GPUs

Takashi Ishida, Shuji Suzuki, Yutaka Akiyama, 2013, BCB.

MEGADOCK-Web: an integrated database of high-throughput structure-based protein-protein interaction predictions

Takanori Hayashi, Yuri Matsuzaki, Yutaka Akiyama, 2018, BMC Bioinformatics.

Link Mining for Kernel-based Compound-Protein Interaction Predictions Using a Chemogenomics Approach pdf

Yutaka Akiyama, Masahito Ohue, Tomohiro Ban, 2017, ICIC.

Multiple HPC Environments-Aware Container Image Configuration Workflow for Large-Scale All-to-All Protein-Protein Docking Calculations

Yutaka Akiyama, Masahito Ohue, Kento Aoyama, 2020, SCFA.

MEGADOCK 4.0: an ultra–high-performance protein–protein docking software for heterogeneous supercomputers

Yuri Matsuzaki, Takashi Ishida, Shuji Suzuki, 2014, Bioinform..

Quantitative Estimate of Protein-Protein Interaction Targeting Drug-likeness

Masahito Ohue, Takatsugi Kosugi, 2021, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB).

MEGADOCK-GUI: a GUI-based complete cross-docking tool for exploring protein-protein interactions pdf

Yutaka Akiyama, Masahito Ohue, 2021, ArXiv.

Drug-target affinity prediction using applicability domain based on data density

Masahito Ohue, Shunya Sugita, 2021, 2021 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB).

Large-Scale Membrane Permeability Prediction of Cyclic Peptides Crossing a Lipid Bilayer Based on Enhanced Sampling Molecular Dynamics Simulations

Yutaka Akiyama, Masahito Ohue, Keisuke Yanagisawa, 2021, J. Chem. Inf. Model..

Drug-target affinity prediction using applicability domain based on data density

Masahito Ohue, Shunya Sugita, 2021 .

NRLMFβ: Beta-distribution-rescored neighborhood regularized logistic matrix factorization for improving the performance of drug–target interaction prediction

Yutaka Akiyama, Masahito Ohue, Tomohiro Ban, 2019, Biochemistry and biophysics reports.

Performance evaluation of MEGADOCK protein – protein interaction prediction system implemented with distributed containers on a cloud computing environment

Yutaka Akiyama, Masahito Ohue, Kento Aoyama, 2019 .

Docking-calculation-based method for predicting protein-RNA interactions.

Yuri Matsuzaki, Yutaka Akiyama, Masahito Ohue, 2011, Genome informatics. International Conference on Genome Informatics.

Re-Docking Scheme for Generating Near-Native Protein Complexes by Assembling Residue Interaction Fingerprints

Yuri Matsuzaki, Yutaka Akiyama, Masahito Ohue, 2013, PloS one.

Protein-protein Interaction Network Prediction by Using Rigid-Body Docking Tools: Application to Bacterial Chemotaxis

Yuri Matsuzaki, Yutaka Akiyama, Masahito Ohue, 2013, Protein and peptide letters.