Yasushi Okuno

Orcid: 0000-0003-3596-4208

According to our database1, Yasushi Okuno authored at least 56 papers between 2002 and 2024.

Collaborative distances:
  • Dijkstra number2 of five.
  • Erdős number3 of four.

Timeline

Legend:

Book 
In proceedings 
Article 
PhD thesis 
Dataset
Other 

Links

On csauthors.net:

Bibliography

2024
Binding Mechanism between Platelet Glycoprotein and Cyclic Peptide Elucidated by McMD-Based Dynamic Docking.
J. Chem. Inf. Model., 2024

Out-of-distribution Reject Option Method for Dataset Shift Problem in Early Disease Onset Prediction.
CoRR, 2024

2023
VGAE-MCTS: A New Molecular Generative Model Combining the Variational Graph Auto-Encoder and Monte Carlo Tree Search.
J. Chem. Inf. Model., December, 2023

Network-based prediction approach for cancer-specific driver missense mutations using a graph neural network.
BMC Bioinform., December, 2023

Improving Compound-Protein Interaction Prediction by Self-Training with Augmenting Negative Samples.
J. Chem. Inf. Model., August, 2023

Individual health-disease phase diagrams for disease prevention based on machine learning.
J. Biomed. Informatics, August, 2023

Privacy-Preserving Correlation Coefficient.
IEICE Trans. Inf. Syst., May, 2023

A New Deep State-Space Analysis Framework for Patient Latent State Estimation and Classification from EHR Time Series Data.
CoRR, 2023

An end-to-end framework for gene expression classification by integrating a background knowledge graph: application to cancer prognosis prediction.
CoRR, 2023

An Auto-Encoder to Reconstruct Structure with Cryo-EM Images via Theoretically Guaranteed Isometric Latent Space, and Its Application for Automatically Computing the Conformational Pathway.
Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2023, 2023

2022
Single-Image Super-Resolution Improvement of X-ray Single-Particle Diffraction Images Using a Convolutional Neural Network.
J. Chem. Inf. Model., 2022

AI-Driven Synthetic Route Design Incorporated with Retrosynthesis Knowledge.
J. Chem. Inf. Model., 2022

Protein-ligand binding affinity prediction of cyclin-dependent kinase-2 inhibitors by dynamically averaged fragment molecular orbital-based interaction energy.
J. Comput. Chem., 2022

Using incomplete Cholesky factorization to increase the time step in molecular dynamics simulations.
J. Comput. Appl. Math., 2022

GraphIX: Graph-based In silico XAI(explainable artificial intelligence) for drug repositioning from biopharmaceutical network.
CoRR, 2022

<i>CBNplot</i>: Bayesian network plots for enrichment analysis.
Bioinform., 2022

Differential Privacy under Incalculable Sensitivity.
Proceedings of the 6th International Conference on Cryptography, Security and Privacy, 2022

2021
Extraction of protein dynamics information from cryo-EM maps using deep learning.
Nat. Mach. Intell., 2021

eSkip-Finder: a machine learning-based web application and database to identify the optimal sequences of antisense oligonucleotides for exon skipping.
Nucleic Acids Res., 2021

Structure-Based de Novo Molecular Generator Combined with Artificial Intelligence and Docking Simulations.
J. Chem. Inf. Model., 2021

Accurate Binding Configuration Prediction of a G-Protein-Coupled Receptor to Its Antagonist Using Multicanonical Molecular Dynamics-Based Dynamic Docking.
J. Chem. Inf. Model., 2021

Complex network prediction using deep learning.
CoRR, 2021

Prediction and visualization of acute kidney injury in intensive care unit using one-dimensional convolutional neural networks based on routinely collected data.
Comput. Methods Programs Biomed., 2021

2020
Coarse-Grained Diffraction Template Matching Model to Retrieve Multiconformational Models for Biomolecule Structures from Noisy Diffraction Patterns.
J. Chem. Inf. Model., 2020

High-Precision Atomic Charge Prediction for Protein Systems Using Fragment Molecular Orbital Calculation and Machine Learning.
J. Chem. Inf. Model., 2020

CompRet: a comprehensive recommendation framework for chemical synthesis planning with algorithmic enumeration.
J. Cheminformatics, 2020

kGCN: a graph-based deep learning framework for chemical structures.
J. Cheminformatics, 2020

Exhaustive search of the configurational space of heat-shock protein 90 with its inhibitor by multicanonical molecular dynamics based dynamic docking.
J. Comput. Chem., 2020

Classification of glomerular pathological findings using deep learning and nephrologist-AI collective intelligence approach.
Int. J. Medical Informatics, 2020

Prediction of blood pressure variability using deep neural networks.
Int. J. Medical Informatics, 2020

Health improvement framework for planning actionable treatment process using surrogate Bayesian model.
CoRR, 2020

2019
Prediction and Interpretable Visualization of Retrosynthetic Reactions Using Graph Convolutional Networks.
J. Chem. Inf. Model., 2019

Force-field parametrization based on radial and energy distribution functions.
J. Comput. Chem., 2019

Med2RDF: Semantic Biomedical Knowledge-base and APIs for the Clinical Genome Medicine.
Proceedings of the 12th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences, 2019

2018
Improving the Accuracy of Protein-Ligand Binding Mode Prediction Using a Molecular Dynamics-Based Pocket Generation Approach.
J. Comput. Chem., 2018

Machine learning accelerates MD-based binding pose prediction between ligands and proteins.
Bioinform., 2018

2017
Construction of Knowledge-Base for Clinical Interpretation of Genomic Variants.
Proceedings of the 10th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences (SWAT4LS 2017), 2017

2016
The Effect of Conformational Flexibility on Binding Free Energy Estimation between Kinases and Their Inhibitors.
J. Chem. Inf. Model., 2016

2014
Computational chemogenomics: Is it more than inductive transfer?
J. Comput. Aided Mol. Des., 2014

2013
On computational complexity of graph inference from counting.
Nat. Comput., 2013

Chemical Genomics Approach for GPCR-Ligand Interaction Prediction and Extraction of Ligand Binding Determinants.
J. Chem. Inf. Model., 2013

On the Behavior of Tile Assembly System at High Temperatures.
Comput., 2013

2012
Dissecting Kinase Profiling Data to Predict Activity and Understand Cross-Reactivity of Kinase Inhibitors.
J. Chem. Inf. Model., 2012

Chemogenomic approach to comprehensive predictions of ligand-target interactions: A comparative study.
Proceedings of the 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2012

2011
Cross-Target View to Feature Selection: Identification of Molecular Interaction Features in Ligand-Target Space.
J. Chem. Inf. Model., 2011

2010
A novel chemogenomics analysis of G protein-coupled receptors (GPCRs) and their ligands: a potential strategy for receptor de-orphanization.
BMC Bioinform., 2010

2009
Laplacian Linear Discriminant Analysis Approach to Unsupervised Feature Selection.
IEEE ACM Trans. Comput. Biol. Bioinform., 2009

Substructure Mining of GPCR Ligands Reveals Activity-Class Specific Functional Groups in an Unbiased Manner.
J. Chem. Inf. Model., 2009

2008
GLIDA: GPCR - ligand database for chemical genomics drug discovery - database and tools update.
Nucleic Acids Res., 2008

2007
Predicting implicit associated cancer genes from OMIM and MEDLINE by a new probabilistic model.
BMC Syst. Biol., 2007

2006
GLIDA: GPCR-ligand database for chemical genomic drug discovery.
Nucleic Acids Res., 2006

2005
A probabilistic model for mining implicit 'chemical compound-gene' relations from literature.
Proceedings of the ECCB/JBI'05 Proceedings, Fourth European Conference on Computational Biology/Sixth Meeting of the Spanish Bioinformatics Network (Jornadas de BioInformática), Palacio de Congresos, Madrid, Spain, September 28, 2005

2004
The KEGG resource for deciphering the genome.
Nucleic Acids Res., 2004

A Hierarchical Mixture of Markov Models for Finding Biologically Active Metabolic Paths Using Gene Expression and Protein Classes.
Proceedings of the 3rd International IEEE Computer Society Computational Systems Bioinformatics Conference, 2004

2003
Mining biologically active patterns in metabolic pathways using microarray expression profiles.
SIGKDD Explor., 2003

2002
LIGAND: database of chemical compounds and reactions in biological pathways.
Nucleic Acids Res., 2002


  Loading...