Yutaka Akiyama

Professor

Tokyo Institute of Technology

Japan

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About

Professor Yutaka Akiyama is a faculty member at the Tokyo Institute of Technology in Japan. His research areas encompass computational biology and molecular dynamics, with recent articles focusing on protein-ligand docking, membrane permeability of cyclic peptides, and advanced computational techniques in biochemistry. He is actively involved in developing innovative methodologies to enhance the accuracy of free energy calculations and improve protein structure analysis.

Articles (12)

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2025

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2024

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2023

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2022

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2022

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2022

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2022

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2021

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2021

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2021

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Assistant Professor

Tokyo Institute of Technology

JAPAN

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Yutaka Akiyama

Research Interests

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About

Articles (12)

PairMap: An Intermediate Insertion Approach for Improving the Accuracy of Relative Free Energy Perturbation Calculations for Distant Compound Transformations

QUBO Problem Formulation of Fragment-Based Protein–Ligand Flexible Docking

CycPeptMPDB: A Comprehensive Database of Membrane Permeability of Cyclic Peptides

Lipid Composition Is Critical for Accurate Membrane Permeability Prediction of Cyclic Peptides by Molecular Dynamics Simulations

Effective Protein–Ligand Docking Strategy via Fragment Reuse and a Proof-of-Concept Implementation

Solving Generalized Polyomino Puzzles Using the Ising Model

Plasma protein binding prediction focusing on residue-level features and circularity of cyclic peptides by deep learning

Taxonomic and Gene Category Analyses of Subgingival Plaques from a Group of Japanese Individuals with and without Periodontitis

Improved Large-Scale Homology Search by Two-Step Seed Search Using Multiple Reduced Amino Acid Alphabets

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

Functional Restoration of Bacteriomes and Viromes by Fecal Microbiota Transplantation

Comprehensive Fungal Community Analysis of House Dust Using Next-Generation Sequencing

Collaborators (6)

Keisuke Yanagisawa

Takashi Ishida

Maiko Watanabe

Toshiharu IKAGA

Kazuyuki Ishihara

Masahito Ohue

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