World's Best Scientists 2026 revealed!
Shoji Takada

Shoji Takada

D-Index & Metrics

Biology and Biochemistry

D-Index
48
Citations
9033
World Ranking
18350
National Ranking
1319

Shoji Takada publication distribution in Biology and Biochemistry in 2026

The chart shows the distribution of publications by all Research.com ranked scientists in the field of Biology and Biochemistry in 2026. The highlighted bar marks where Shoji Takada sits on this spectrum.

47–56 publications: 8 scientists 57–66 publications: 35 scientists 67–76 publications: 106 scientists 77–86 publications: 231 scientists 87–96 publications: 414 scientists 97–106 publications: 546 scientists 107–116 publications: 704 scientists 117–126 publications: 849 scientists 127–136 publications: 980 scientists 137–146 publications: 942 scientists 147–156 publications: 969 scientists 157–166 publications: 950 scientists 167–176 publications: 951 scientists 177–186 publications: 915 scientists 187–196 publications: 787 scientists 197–206 publications: 841 scientists 207–216 publications: 735 scientists 217–226 publications: 709 scientists 227–236 publications: 651 scientists 237–246 publications: 605 scientists 247–256 publications: 510 scientists 257–266 publications: 524 scientists 267–276 publications: 434 scientists 277–286 publications: 418 scientists 287–296 publications: 350 scientists 297–306 publications: 363 scientists 307–316 publications: 315 scientists 317–326 publications: 296 scientists 327–336 publications: 261 scientists 337–346 publications: 240 scientists 347–356 publications: 219 scientists 357–366 publications: 197 scientists 367–376 publications: 154 scientists 377–386 publications: 161 scientists 387–396 publications: 155 scientists 397–406 publications: 145 scientists 407–416 publications: 124 scientists 417–426 publications: 112 scientists 427–436 publications: 132 scientists 437–446 publications: 116 scientists 447–456 publications: 99 scientists 457–466 publications: 81 scientists 467–476 publications: 91 scientists 477–486 publications: 80 scientists 487–496 publications: 80 scientists 497–506 publications: 60 scientists 507–516 publications: 36 scientists 517–526 publications: 46 scientists 527–536 publications: 54 scientists 537–546 publications: 44 scientists 547–556 publications: 43 scientists 557–566 publications: 43 scientists 567–576 publications: 42 scientists 577–586 publications: 25 scientists 587–596 publications: 34 scientists 597–606 publications: 23 scientists 607–616 publications: 33 scientists 617–626 publications: 31 scientists 627–636 publications: 27 scientists 637–646 publications: 25 scientists 647–656 publications: 28 scientists 657–666 publications: 34 scientists 667–676 publications: 18 scientists 677–686 publications: 16 scientists 687–696 publications: 10 scientists 697–706 publications: 12 scientists 707–716 publications: 21 scientists 717–726 publications: 12 scientists 727–736 publications: 12 scientists 737–746 publications: 10 scientists 747–756 publications: 7 scientists 757–766 publications: 13 scientists 767–776 publications: 15 scientists 777–786 publications: 13 scientists 787–796 publications: 9 scientists 797–806 publications: 9 scientists 807–816 publications: 7 scientists 817–826 publications: 4 scientists 827–836 publications: 9 scientists 837–846 publications: 7 scientists 847–856 publications: 3 scientists 857–866 publications: 5 scientists 867–876 publications: 5 scientists 877–886 publications: 11 scientists 887–896 publications: 3 scientists 897–906 publications: 4 scientists 907–916 publications: 7 scientists 917–926 publications: 5 scientists 927–936 publications: 6 scientists 937–946 publications: 6 scientists 947–956 publications: 3 scientists 957–966 publications: 7 scientists 967–976 publications: 2 scientists 977–986 publications: 2 scientists 987–996 publications: 1 scientists 997–1,006 publications: 5 scientists 1,007–1,016 publications: 2 scientists 1,017–1,026 publications: 2 scientists 1,027 publications: 1 scientists 1,028+ publications: 100 scientists
47 publications 1,028+

This scientist: 287 publications — 76th percentile

76% of scientists in this discipline score the same or lower.

The last bar groups every scientist with 1,028 publications or more.

Shoji Takada D-index placement in Biology and Biochemistry in 2026

The chart shows the D-index (discipline H-index) distribution of Biology and Biochemistry scientists ranked by Research.com in 2026. The highlighted bar marks where Shoji Takada sits on this spectrum.

40–41 D-Index: 80 scientists 42–43 D-Index: 183 scientists 44–45 D-Index: 317 scientists 46–47 D-Index: 504 scientists 48–49 D-Index: 718 scientists 50–51 D-Index: 900 scientists 52–53 D-Index: 1,026 scientists 54–55 D-Index: 1,150 scientists 56–57 D-Index: 1,236 scientists 58–59 D-Index: 1,253 scientists 60–61 D-Index: 1,163 scientists 62–63 D-Index: 1,131 scientists 64–65 D-Index: 1,032 scientists 66–67 D-Index: 897 scientists 68–69 D-Index: 814 scientists 70–71 D-Index: 715 scientists 72–73 D-Index: 709 scientists 74–75 D-Index: 596 scientists 76–77 D-Index: 512 scientists 78–79 D-Index: 473 scientists 80–81 D-Index: 412 scientists 82–83 D-Index: 373 scientists 84–85 D-Index: 358 scientists 86–87 D-Index: 285 scientists 88–89 D-Index: 273 scientists 90–91 D-Index: 227 scientists 92–93 D-Index: 208 scientists 94–95 D-Index: 193 scientists 96–97 D-Index: 153 scientists 98–99 D-Index: 157 scientists 100–101 D-Index: 148 scientists 102–103 D-Index: 120 scientists 104–105 D-Index: 113 scientists 106–107 D-Index: 100 scientists 108–109 D-Index: 86 scientists 110–111 D-Index: 67 scientists 112–113 D-Index: 72 scientists 114–115 D-Index: 73 scientists 116–117 D-Index: 64 scientists 118–119 D-Index: 53 scientists 120–121 D-Index: 60 scientists 122–123 D-Index: 54 scientists 124–125 D-Index: 43 scientists 126–127 D-Index: 38 scientists 128–129 D-Index: 49 scientists 130–131 D-Index: 26 scientists 132–133 D-Index: 18 scientists 134–135 D-Index: 23 scientists 136–137 D-Index: 32 scientists 138–139 D-Index: 32 scientists 140–141 D-Index: 27 scientists 142–143 D-Index: 19 scientists 144–145 D-Index: 22 scientists 146–147 D-Index: 12 scientists 148–149 D-Index: 16 scientists 150–151 D-Index: 14 scientists 152–153 D-Index: 10 scientists 154–155 D-Index: 13 scientists 156–157 D-Index: 10 scientists 158–159 D-Index: 7 scientists 160–161 D-Index: 9 scientists 162–163 D-Index: 13 scientists 164–165 D-Index: 4 scientists 166 D-Index: 4 scientists 167+ D-Index: 98 scientists
40 D-Index 167+

This scientist: 48 D-Index — 7th percentile

7% of scientists in this discipline score the same or lower.

The last bar groups every scientist with 167 D-Index or more.

Overview

Shoji Takada is affiliated with Kyoto University in Japan and has an extensive publication record in the field of Biochemistry, Genetics, and Molecular Biology. Their research primarily focuses on Molecular Biology and includes subfields such as Atomic and Molecular Physics and Optics, Cell Biology, Structural Biology, and Genetics.

Takada's work covers a range of scientific topics including:

  • Genomics and Chromatin Dynamics
  • RNA and protein synthesis mechanisms
  • RNA Research and Splicing
  • Force Microscopy Techniques and Applications
  • DNA and Nucleic Acid Chemistry
  • Protein Structure and Dynamics
  • Advanced Electron Microscopy Techniques and Applications

Their recent papers include:

  • "Nucleosome allostery in pioneer transcription factor binding," 2020, Proceedings of the National Academy of Sciences
  • "Implementation of residue-level coarse-grained models in GENESIS for large-scale molecular dynamics simulations," 2022, PLoS Computational Biology
  • "Flexible Fitting of Biomolecular Structures to Atomic Force Microscopy Images via Biased Molecular Simulations," 2020, Journal of Chemical Theory and Computation
  • "Molecular dynamics simulation of proton-transfer coupled rotations in ATP synthase FO motor," 2020, Scientific Reports
  • "Role of bacterial RNA polymerase gate opening dynamics in DNA loading and antibiotics inhibition elucidated by quasi-Markov State Model," 2021, Proceedings of the National Academy of Sciences

Takada has collaborated frequently with several researchers including Giovanni B. Brandani, Toru Niina, Cheng Tan, Shintaroh Kubo, and Yuji Sugita. These coauthors have appeared collectively in numerous publications, reflecting ongoing research partnerships.

Their work has been published in a variety of scientific venues. The most frequent publication platforms include:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • Biophysical Journal
  • PLoS Computational Biology
  • Journal of Chemical Theory and Computation
  • Nucleic Acids Research

Best Publications

  • On the Hamiltonian replica exchange method for efficient sampling of biomolecular systems: Application to protein structure prediction

    Hiroaki Fukunishi;Osamu Watanabe;Shoji Takada

  • Roles of native topology and chain-length scaling in protein folding: a simulation study with a Go-like model.

    Nobuyasu Koga;Shoji Takada;Shoji Takada

  • Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms

    Kei-ichi Okazaki;Shoji Takada

  • Multiple-basin energy landscapes for large-amplitude conformational motions of proteins: Structure-based molecular dynamics simulations

    Kei-ichi Okazaki;Nobuyasu Koga;Shoji Takada;Jose N. Onuchic

  • Bimodal protein solubility distribution revealed by an aggregation analysis of the entire ensemble of Escherichia coli proteins

    Tatsuya Niwa;Bei Wen Ying;Bei Wen Ying;Katsuyo Saito;Wenzhen Jin

  • How protein thermodynamics and folding mechanisms are altered by the chaperonin cage: Molecular simulations

    Fumiko Takagi;Nobuyasu Koga;Shoji Takada

  • Coarse-grained molecular simulations of large biomolecules

    Shoji Takada

  • CafeMol: A Coarse-Grained Biomolecular Simulator for Simulating Proteins at Work

    Hiroo Kenzaki;Nobuyasu Koga;Naoto Hori;Ryo Kanada

  • Folding dynamics with nonadditive forces: A simulation study of a designed helical protein and a random heteropolymer

    Shoji Takada;Shoji Takada;Zaida Luthey-Schulten;Peter G. Wolynes

  • Microscopic Theory of Protein Folding Rates.II: Local Reaction Coordinates and Chain Dynamics

    John J. Portman;Shoji Takada;Peter G. Wolynes

  • Go-ing for the prediction of protein folding mechanisms.

    Shoji Takada

  • Energy landscape views for interplays among folding, binding, and allostery of calmodulin domains

    Wenfei Li;Wei Wang;Shoji Takada

  • Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins

    Wenfei Li;Peter G. Wolynes;Shoji Takada

  • On easy implementation of a variant of the replica exchange with solute tempering in GROMACS.

    Tsuyoshi Terakawa;Tomoshi Kameda;Shoji Takada

  • Energy landscape and multiroute folding of topologically complex proteins adenylate kinase and 2ouf-knot

    Wenfei Li;Wenfei Li;Tsuyoshi Terakawa;Wei Wang;Shoji Takada

  • Variational Theory for Site Resolved Protein Folding Free Energy Surfaces

    J. J. Portman;S. Takada;P. G. Wolynes

  • Modeling Structural Dynamics of Biomolecular Complexes by Coarse-Grained Molecular Simulations.

    Shoji Takada;Ryo Kanada;Cheng Tan;Tsuyoshi Terakawa

  • Folding-based molecular simulations reveal mechanisms of the rotary motor F1-ATPase.

    Nobuyasu Koga;Shoji Takada

  • Effects of vibrational excitation on multidimensional tunneling: General study and proton tunneling in tropolone

    Shoji Takada;Hiroki Nakamura

  • Optimizing physical energy functions for protein folding.

    Yoshimi Fujitsuka;Shoji Takada;Shoji Takada;Zaida A. Luthey-Schulten;Peter G. Wolynes

Frequent Co-Authors

Peter G. Wolynes
Peter G. Wolynes Rice University
Shun Hirota
Shun Hirota Nara Institute of Science and Technology
Masaru Tanokura
Masaru Tanokura University of Tokyo
Tsutomu Katayama
Tsutomu Katayama Kyushu University
Do Hyun Kim
Do Hyun Kim Korea Advanced Institute of Science and Technology
Reid C. Johnson
Reid C. Johnson University of California, Los Angeles
Hitoshi Kurumizaka
Hitoshi Kurumizaka University of Tokyo
Zaida Luthey-Schulten
Zaida Luthey-Schulten University of Illinois at Urbana-Champaign
Soichi Wakatsuki
Soichi Wakatsuki Stanford University
Shaul Mukamel
Shaul Mukamel University of California, Irvine

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