Yutaka Akiyama

ResearcherID ORCID

Publication Activity (10 Years)

Years Active: 2018-2024
Publications (10 Years): 17

Top Venues

Entropy (Basel, Switzerland)

Nature communications

Journal of chemical information and modeling

ACS omega

Tokyo Institute of Technology

Keio University (PHD)

This page only lists publications with an associated author ORCID identifier.

Affiliation History

Tokyo Institute of Technology Apr 01 2007

Japan

Professor :: Computer Science

National Institute of Advanced Industrial Science and Technology Apr 01 2001 - Mar 31 2007

Japan

Director :: Computational Biology Research Center

Agency of Industrial Science and Technology Apr 01 2000 - Mar 31 2001

Japan

Senior Researcher :: Electrotechnical Laboratory

Real World Computing Partnership Apr 01 1996 - Mar 31 2000

Japan

Laboratory Chief :: Tsukuba Research Center

Kyoto University Apr 01 1992 - Mar 31 1996

Japan

Associate Professor :: Instithte for Chemical Research

Agency of Industrial Science and Technology Apr 01 1990 - Mar 31 1992

Japan

Researcher :: Electrotechnical Laboratory

Education History

Keio University Apr 01 1986 - Mar 31 1990

Japan

PHD :: Electrical Engineering

Keio University Apr 01 1984 - Mar 31 1986

Japan

MSC :: Electrical Engineering

Keio University Apr 01 1980 - Mar 31 1984

Japan

BSC :: Electrical Engineering

Publications

Keisuke Yanagisawa, Takuya Fujie, Kazuki Takabatake, Yutaka Akiyama
QUBO Problem Formulation of Fragment-Based Protein-Ligand Flexible Docking. Entropy (Basel, Switzerland) 26 (5) (2024)
Keisuke Yanagisawa, Takuya Fujie, Kazuki Takabatake, Yutaka Akiyama
QUBO Problem Formulation of Fragment-Based Protein-Ligand Flexible Docking. Entropy (Basel, Switzerland) 26 (5) (2024)
Yuki Hosono, Satoshi Uchida, Moe Shinkai, Chad E Townsend, Colin N Kelly, Matthew R Naylor, Hsiau-Wei Lee, Kayoko Kanamitsu, Mayumi Ishii, Ryosuke Ueki, Takumi Ueda, Koh Takeuchi, Masatake Sugita, Yutaka Akiyama, Scott R Lokey, Jumpei Morimoto, Shinsuke Sando
Amide-to-ester substitution as a stable alternative to N-methylation for increasing membrane permeability in cyclic peptides. Nature communications 14 (1) (2023)
Ryunosuke Yoshino, Nobuaki Yasuo, Yohsuke Hagiwara, Takashi Ishida, Daniel Ken Inaoka, Yasushi Amano, Yukihiro Tateishi, Kazuki Ohno, Ichiji Namatame, Tatsuya Niimi, Masaya Orita, Kiyoshi Kita, Yutaka Akiyama, Masakazu Sekijima
Discovery of a Hidden Trypanosoma cruzi Spermidine Synthase Binding Site and Inhibitors through In Silico, In Vitro , and X-ray Crystallography. ACS omega 8 (29) (2023)
Yuki Hosono, Satoshi Uchida, Moe Shinkai, Chad E Townsend, Colin N Kelly, Matthew R Naylor, Hsiau-Wei Lee, Kayoko Kanamitsu, Mayumi Ishii, Ryosuke Ueki, Takumi Ueda, Koh Takeuchi, Masatake Sugita, Yutaka Akiyama, Scott R Lokey, Jumpei Morimoto, Shinsuke Sando
Amide-to-ester substitution as a stable alternative to N-methylation for increasing membrane permeability in cyclic peptides. Nature communications 14 (1) (2023)
Yuki Hosono, Satoshi Uchida, Moe Shinkai, Chad E Townsend, Colin N Kelly, Matthew R Naylor, Hsiau-Wei Lee, Kayoko Kanamitsu, Mayumi Ishii, Ryosuke Ueki, Takumi Ueda, Koh Takeuchi, Masatake Sugita, Yutaka Akiyama, Scott R Lokey, Jumpei Morimoto, Shinsuke Sando
Amide-to-ester substitution as a stable alternative to N-methylation for increasing membrane permeability in cyclic peptides. Nature communications 14 (1) (2023)
Jianan Li, Keisuke Yanagisawa, Masatake Sugita, Takuya Fujie, Masahito Ohue, Yutaka Akiyama
CycPeptMPDB: A Comprehensive Database of Membrane Permeability of Cyclic Peptides. Journal of chemical information and modeling (2023)
Masatake Sugita, Takuya Fujie, Keisuke Yanagisawa, Masahito Ohue, Yutaka Akiyama
Lipid Composition Is Critical for Accurate Membrane Permeability Prediction of Cyclic Peptides by Molecular Dynamics Simulations. Journal of chemical information and modeling 62 (18) (2022)
Keisuke Yanagisawa, Rikuto Kubota, Yasushi Yoshikawa, Masahito Ohue, Yutaka Akiyama
Effective Protein-Ligand Docking Strategy via Fragment Reuse and a Proof-of-Concept Implementation. ACS omega 7 (34) (2022)
Kazuki Takabatake, Keisuke Yanagisawa, Yutaka Akiyama
Solving Generalized Polyomino Puzzles Using the Ising Model. Entropy (Basel, Switzerland) 24 (3) (2022)
Masatake Sugita, Satoshi Sugiyama, Takuya Fujie, Yasushi Yoshikawa, Keisuke Yanagisawa, Masahito Ohue, Yutaka Akiyama
Large-Scale Membrane Permeability Prediction of Cyclic Peptides Crossing a Lipid Bilayer Based on Enhanced Sampling Molecular Dynamics Simulations. Journal of chemical information and modeling 61 (7) (2021)
Jianan Li, Keisuke Yanagisawa, Yasushi Yoshikawa, Masahito Ohue, Yutaka Akiyama
Plasma protein binding prediction focusing on residue-level features and circularity of cyclic peptides by deep learning. Bioinformatics (Oxford, England) (2021)
Kazuki Izawa, Kazuko Okamoto-Shibayama, Daichi Kita, Sachiyo Tomita, Atsushi Saito, Takashi Ishida, Masahito Ohue, Yutaka Akiyama, Kazuyuki Ishihara
Taxonomic and Gene Category Analyses of Subgingival Plaques from a Group of Japanese Individuals with and without Periodontitis. International journal of molecular sciences 22 (10) (2021)
Kazuki Takabatake, Kazuki Izawa, Motohiro Akikawa, Keisuke Yanagisawa, Masahito Ohue, Yutaka Akiyama
Improved Large-Scale Homology Search by Two-Step Seed Search Using Multiple Reduced Amino Acid Alphabets. Genes 12 (9) (2021)
Kazuki Izawa, Atsutaka Kubosaki, Naoki Kobayashi, Yutaka Akiyama, Akiko Yamazaki, Kazuhiro Hashimoto, Rumi Konuma, Yoichi Kamata, Yukiko Hara-Kudo, Kenichi Hasegawa, Toshiharu Ikaga, Maiko Watanabe
Comprehensive Fungal Community Analysis of House Dust Using Next-Generation Sequencing. International journal of environmental research and public health 17 (16) (2020)
Shuntaro Chiba, Masahito Ohue, Anastasiia Gryniukova, Petro Borysko, Sergey Zozulya, Nobuaki Yasuo, Ryunosuke Yoshino, Kazuyoshi Ikeda, Woong-Hee Shin, Daisuke Kihara, Mitsuo Iwadate, Hideaki Umeyama, Takaaki Ichikawa, Reiji Teramoto, Kun-Yi Hsin, Vipul Gupta, Hiroaki Kitano, Mika Sakamoto, Akiko Higuchi, Nobuaki Miura, Kei Yura, Masahiro Mochizuki, Chandrasekaran Ramakrishnan, A Mary Thangakani, D Velmurugan, M Michael Gromiha, Itsuo Nakane, Nanako Uchida, Hayase Hakariya, Modong Tan, Hironori K Nakamura, Shogo D Suzuki, Tomoki Ito, Masahiro Kawatani, Kentaroh Kudoh, Sakurako Takashina, Kazuki Z Yamamoto, Yoshitaka Moriwaki, Keita Oda, Daisuke Kobayashi, Tatsuya Okuno, Shintaro Minami, George Chikenji, Philip Prathipati, Chioko Nagao, Attayeb Mohsen, Mari Ito, Kenji Mizuguchi, Teruki Honma, Takashi Ishida, Takatsugu Hirokawa, Yutaka Akiyama, Masakazu Sekijima
A prospective compound screening contest identified broader inhibitors for Sirtuin 1. Scientific reports 9 (1) (2019)
Masahiro Mochizuki, Shogo D Suzuki, Keisuke Yanagisawa, Masahito Ohue, Yutaka Akiyama
QEX: target-specific druglikeness filter enhances ligand-based virtual screening. Molecular diversity 23 (1) (2018)

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Publication Activity (10 Years)

Top Topics

Top Venues

Yutaka Akiyama