Kentaro Tomii

6.1k total citations · 2 hit papers
77 papers, 3.9k citations indexed

About

Kentaro Tomii is a scholar working on Molecular Biology, Materials Chemistry and Infectious Diseases. According to data from OpenAlex, Kentaro Tomii has authored 77 papers receiving a total of 3.9k indexed citations (citations by other indexed papers that have themselves been cited), including 63 papers in Molecular Biology, 16 papers in Materials Chemistry and 9 papers in Infectious Diseases. Recurrent topics in Kentaro Tomii's work include Protein Structure and Dynamics (30 papers), Machine Learning in Bioinformatics (24 papers) and RNA and protein synthesis mechanisms (16 papers). Kentaro Tomii is often cited by papers focused on Protein Structure and Dynamics (30 papers), Machine Learning in Bioinformatics (24 papers) and RNA and protein synthesis mechanisms (16 papers). Kentaro Tomii collaborates with scholars based in Japan, United States and Australia. Kentaro Tomii's co-authors include Kazunori Yamada, Kazutaka Katoh, Minoru Kanehisa, Tsukasa Nakamura, Jun Sese, Kenichiro Imai, Paul Horton, Yoshinori Fukasawa, Junko Tsuji and Yutaka Akiyama and has published in prestigious journals such as Science, Nucleic Acids Research and Journal of Biological Chemistry.

In The Last Decade

Kentaro Tomii

76 papers receiving 3.8k citations

Hit Papers

align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

Parallelization of MAFFT for large-scale multiple sequence alignments

2018 628 citations Kazunori Yamada, Kentaro Tomii et al. Bioinformatics profile →
Compound–protein interaction prediction with end-to-end learning of neural networks for graphs and sequences

2018 442 citations Kentaro Tomii et al. Bioinformatics profile →

Peers

Kentaro Tomii

CTM

Dmitry Kuznetsov Russia

Krzysztof Ginalski Poland

Mona Singh United States

Marc van Dijk Netherlands

Takaho Terada Japan

Ramanathan Sowdhamini India

Daniel Buchan United Kingdom

Jenn‐Kang Hwang Taiwan

Fabian Glaser Israel

Zhenling Peng China

Dmitry Kuznetsov Russia

Kentaro Tomii

2.3k ×0.8

478 ×0.9

CTM

531 ×1.0

284 ×0.8

174 ×0.5

Citations per year, relative to Kentaro Tomii Kentaro Tomii (= 1×) peers Dmitry Kuznetsov

Countries citing papers authored by Kentaro Tomii

Since Specialization

Citations

This map shows the geographic impact of Kentaro Tomii's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Kentaro Tomii with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Kentaro Tomii more than expected).

Fields of papers citing papers by Kentaro Tomii

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Kentaro Tomii. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Kentaro Tomii. The network helps show where Kentaro Tomii may publish in the future.

Co-authorship network of co-authors of Kentaro Tomii

This figure shows the co-authorship network connecting the top 25 collaborators of Kentaro Tomii. A scholar is included among the top collaborators of Kentaro Tomii based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Kentaro Tomii. Kentaro Tomii is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

Sort: Min cites: Since: Top N: Style:

20 of 20 papers shown

Tomii, Kentaro. (2024). Protein Structure Prediction to Function Prediction Using AlphaFold. Seibutsu Butsuri. 64(1). 5–11.

Tsuchiya, Yuko, et al.. (2023). PoSSuM v.3: A Major Expansion of the PoSSuM Database for Finding Similar Binding Sites of Proteins. Journal of Chemical Information and Modeling. 63(23). 7578–7587. 2 indexed citations

Takeda, H., Jon V. Busto, Caroline Lindau, et al.. (2023). A multipoint guidance mechanism for β-barrel folding on the SAM complex. Nature Structural & Molecular Biology. 30(2). 176–187. 15 indexed citations

Tomii, Kentaro, et al.. (2022). Application of Homology Modeling by Enhanced Profile–Profile Alignment and Flexible-Fitting Simulation to Cryo-EM Based Structure Determination. International Journal of Molecular Sciences. 23(4). 1977–1977. 1 indexed citations

Kimura, Keisuke, Fumihiro Kawai, Hisako Kubota-Kawai, et al.. (2021). Crystal structure of Tam41 cytidine diphosphate diacylglycerol synthase from a Firmicutes bacterium. The Journal of Biochemistry. 171(4). 429–441. 3 indexed citations

Umeno, Aya, M. Sakashita, Sakiko Sugino, et al.. (2020). Comprehensive analysis of PPARγ agonist activities of stereo-, regio-, and enantio-isomers of hydroxyoctadecadienoic acids. Bioscience Reports. 40(4). 25 indexed citations

Saito‐Nakano, Yumiko, et al.. (2020). Rab7D small GTPase is involved in phago‐, trogocytosis and cytoskeletal reorganization in the enteric protozoan Entamoeba histolytica . Cellular Microbiology. 23(1). e13267–e13267. 16 indexed citations

Nakada‐Tsukui, Kumiko, Tsuyoshi Sekizuka, Aleyla E. de Cadiz, et al.. (2018). AIG1 affects in vitro and in vivo virulence in clinical isolates of Entamoeba histolytica. PLoS Pathogens. 14(3). e1006882–e1006882. 19 indexed citations

Moya, Aurélie, Kazuhiro Sakamaki, Benjamin Mason, et al.. (2016). Functional conservation of the apoptotic machinery from coral to man: the diverse and complex Bcl-2 and caspase repertoires of Acropora millepora. BMC Genomics. 17(1). 62–62. 43 indexed citations

10.

Sakamaki, Kazuhiro, Kenichiro Imai, Kentaro Tomii, & David J. Miller. (2015). Evolutionary analyses of caspase‐8 and its paralogs: Deep origins of the apoptotic signaling pathways. BioEssays. 37(7). 767–776. 50 indexed citations

11.

Sakamaki, Kazuhiro, Naoyuki Iwabe, Hiroaki Iwata, et al.. (2015). Conservation of structure and function in vertebrate c-FLIP proteins despite rapid evolutionary change. Biochemistry and Biophysics Reports. 3. 175–189. 7 indexed citations

12.

Sasaki, Yutaka, Kazunori Yamada, Yasumitsu Kondoh, et al.. (2015). A Novel Antiviral Target Structure Involved in the RNA Binding, Dimerization, and Nuclear Export Functions of the Influenza A Virus Nucleoprotein. PLoS Pathogens. 11(7). e1005062–e1005062. 39 indexed citations

13.

Nagano, Nozomi, et al.. (2014). EzCatDB: the enzyme reaction database, 2015 update. Nucleic Acids Research. 43(D1). D453–D458. 25 indexed citations

14.

Tsuji, Junko, Martin C. Frith, Kentaro Tomii, & Paul Horton. (2012). Mammalian NUMT insertion is non-random. Nucleic Acids Research. 40(18). 9073–9088. 85 indexed citations

15.

Ito, Jun‐ichi, Yasuo Tabei, Kana Shimizu, Kentaro Tomii, & Koji Tsuda. (2011). PDB‐scale analysis of known and putative ligand‐binding sites with structural sketches. Proteins Structure Function and Bioinformatics. 80(3). 747–763. 20 indexed citations

16.

Koike, Ryotaro, Kana Shimizu, Matsuyuki Shirota, et al.. (2010). SAHG, a comprehensive database of predicted structures of all human proteins. Nucleic Acids Research. 39(suppl_1). D487–D493. 9 indexed citations

17.

Hirokawa, Takatsugu, et al.. (2007). Identification of Glycosyltransferases Focusing on Golgi Transmembrane Region. Trends in Glycoscience and Glycotechnology. 19(105). 41–47. 3 indexed citations

18.

Tomii, Kentaro & Yutaka Akiyama. (2004). FORTE: a profile–profile comparison tool for protein fold recognition. Bioinformatics. 20(4). 594–595. 69 indexed citations

19.

Tomii, Kentaro & Minoru Kanehisa. (1998). A Comparative Analysis of ABC Transporters in Complete Microbial Genomes. Genome Research. 8(10). 1048–1059. 104 indexed citations

20.

Tomii, Kentaro & Minoru Kanehisa. (1996). Analysis of amino acid indices and mutation matrices for sequence comparison and structure prediction of proteins. Protein Engineering Design and Selection. 9(1). 27–36. 300 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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