Benjamin M. Gyori

2.3k total citations · 1 hit paper
27 papers, 907 citations indexed

About

Benjamin M. Gyori is a scholar working on Molecular Biology, Artificial Intelligence and Computational Theory and Mathematics. According to data from OpenAlex, Benjamin M. Gyori has authored 27 papers receiving a total of 907 indexed citations (citations by other indexed papers that have themselves been cited), including 21 papers in Molecular Biology, 7 papers in Artificial Intelligence and 4 papers in Computational Theory and Mathematics. Recurrent topics in Benjamin M. Gyori's work include Biomedical Text Mining and Ontologies (10 papers), Bioinformatics and Genomic Networks (10 papers) and Gene Regulatory Network Analysis (5 papers). Benjamin M. Gyori is often cited by papers focused on Biomedical Text Mining and Ontologies (10 papers), Bioinformatics and Genomic Networks (10 papers) and Gene Regulatory Network Analysis (5 papers). Benjamin M. Gyori collaborates with scholars based in United States, Germany and Singapore. Benjamin M. Gyori's co-authors include Marie‐Véronique Clement, David Hsu, P. S. Thiagarajan, Gireedhar Venkatachalam, Peter K. Sorger, John A. Bachman, Charles Tapley Hoyt, Kartik Subramanian, Lucian Galescu and Jeremy L. Muhlich and has published in prestigious journals such as Nucleic Acids Research, Nature Immunology and Bioinformatics.

In The Last Decade

Benjamin M. Gyori

27 papers receiving 893 citations

Hit Papers

align trajectories sort by overperformance

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.

OpenComet: An automated tool for comet assay image analysis

2014 501 citations Benjamin M. Gyori, Gireedhar Venkatachalam et al. Redox Biology profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name	h						Papers	Cites
Benjamin M. Gyori United States	13	592	109	100	70	66	27	907
Weimin Feng China	12	875 1.5×	92 0.8×	62 0.6×	46 0.7×	114 1.7×	28	1.6k
Yuexu Jiang United States	13	739 1.2×	111 1.0×	41 0.4×	51 0.7×	24 0.4×	35	995
Lit‐Hsin Loo Singapore	14	601 1.0×	130 1.2×	171 1.7×	134 1.9×	29 0.4×	33	1.2k
Srikant Verma India	5	595 1.0×	129 1.2×	42 0.4×	54 0.8×	21 0.3×	5	891
Rani K. Powers United States	8	599 1.0×	111 1.0×	74 0.7×	91 1.3×	12 0.2×	12	1.1k
Sergei Egorov United States	5	699 1.2×	76 0.7×	54 0.5×	94 1.3×	26 0.4×	5	949
Noriyuki Nakatsu Japan	15	660 1.1×	139 1.3×	99 1.0×	227 3.2×	53 0.8×	27	1.0k
Jie Bao China	24	668 1.1×	241 2.2×	107 1.1×	64 0.9×	14 0.2×	85	1.6k
Bao-Ling Adam United States	18	1.0k 1.8×	144 1.3×	169 1.7×	20 0.3×	42 0.6×	25	1.6k

Countries citing papers authored by Benjamin M. Gyori

Since Specialization

Citations

This map shows the geographic impact of Benjamin M. Gyori'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 Benjamin M. Gyori with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Benjamin M. Gyori more than expected).

Fields of papers citing papers by Benjamin M. Gyori

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Benjamin M. Gyori. 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 Benjamin M. Gyori. The network helps show where Benjamin M. Gyori may publish in the future.

Co-authorship network of co-authors of Benjamin M. Gyori

This figure shows the co-authorship network connecting the top 25 collaborators of Benjamin M. Gyori. A scholar is included among the top collaborators of Benjamin M. Gyori 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 Benjamin M. Gyori. Benjamin M. Gyori is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

Surdo, Prisca Lo, Marta Iannuccelli, Klas Karis, et al.. (2025). SIGNOR 4.0: the 2025 update with focus on phosphorylation data. Nucleic Acids Research. 54(D1). D682–D690. 1 indexed citations

Anderson, Lindsey, Charles Tapley Hoyt, Jeremy Zucker, et al.. (2025). Computational tools and data integration to accelerate vaccine development: challenges, opportunities, and future directions. Frontiers in Immunology. 16. 1502484–1502484. 7 indexed citations

Gyori, Benjamin M. & Olga Vitek. (2024). Beyond protein lists: AI-assisted interpretation of proteomic investigations in the context of evolving scientific knowledge. Nature Methods. 21(8). 1387–1389. 5 indexed citations

Jain, Aakanksha, Benjamin M. Gyori, Sara Hakim, et al.. (2024). Nociceptor-immune interactomes reveal insult-specific immune signatures of pain. Nature Immunology. 25(7). 1296–1305. 26 indexed citations

Hoyt, Charles Tapley, et al.. (2023). Prediction and curation of missing biomedical identifier mappings with Biomappings. Bioinformatics. 39(4). 5 indexed citations

Pillich, Rudolf, Jing Chen, Christopher Churas, et al.. (2023). NDEx IQuery: a multi-method network gene set analysis leveraging the Network Data Exchange. Bioinformatics. 39(3). 18 indexed citations

Bachman, John A., Benjamin M. Gyori, & Peter K. Sorger. (2023). Automated assembly of molecular mechanisms at scale from text mining and curated databases. Molecular Systems Biology. 19(5). e11325–e11325. 23 indexed citations

Hoyt, Charles Tapley, Colin Birkenbihl, Benjamin M. Gyori, et al.. (2022). STonKGs: a sophisticated transformer trained on biomedical text and knowledge graphs. Bioinformatics. 38(6). 1648–1656. 17 indexed citations

Gyori, Benjamin M., et al.. (2022). Gilda: biomedical entity text normalization with machine-learned disambiguation as a service. Bioinformatics Advances. 2(1). vbac034–vbac034. 9 indexed citations

10.

Doherty, Laura M., Caitlin E. Mills, Sarah A. Boswell, et al.. (2022). Integrating multi-omics data reveals function and therapeutic potential of deubiquitinating enzymes. eLife. 11. 26 indexed citations

11.

Gyori, Benjamin M. & Charles Tapley Hoyt. (2022). PyBioPAX: biological pathway exchange in Python. The Journal of Open Source Software. 7(71). 4136–4136. 2 indexed citations

12.

Gyori, Benjamin M. & John A. Bachman. (2021). From knowledge to models: Automated modeling in systems and synthetic biology. Current Opinion in Systems Biology. 28. 100362–100362. 5 indexed citations

13.

Ietswaart, Robert, Benjamin M. Gyori, John A. Bachman, Peter K. Sorger, & L. Stirling Churchman. (2021). GeneWalk identifies relevant gene functions for a biological context using network representation learning. Genome biology. 22(1). 55–55. 33 indexed citations

14.

Gyori, Benjamin M., et al.. (2020). Robustness and parameter geography in post-translational modification systems. PLoS Computational Biology. 16(5). e1007573–e1007573. 17 indexed citations

15.

Hoyt, Charles Tapley, et al.. (2019). Re-curation and rational enrichment of knowledge graphs in Biological Expression Language. Database. 2019. 15 indexed citations

16.

Sampattavanich, Somponnat, et al.. (2018). Encoding Growth Factor Identity in the Temporal Dynamics of FOXO3 under the Combinatorial Control of ERK and AKT Kinases. Cell Systems. 6(6). 664–678.e9. 33 indexed citations

17.

Bachman, John A., Benjamin M. Gyori, & Peter K. Sorger. (2018). FamPlex: a resource for entity recognition and relationship resolution of human protein families and complexes in biomedical text mining. BMC Bioinformatics. 19(1). 248–248. 20 indexed citations

18.

Gyori, Benjamin M., John A. Bachman, Kartik Subramanian, et al.. (2017). From word models to executable models of signaling networks using automated assembly. Molecular Systems Biology. 13(11). 954–954. 88 indexed citations

19.

Gyori, Benjamin M. & Daniel Paulin. (2015). Hypothesis testing for Markov chain Monte Carlo. Statistics and Computing. 26(6). 1281–1292. 2 indexed citations

20.

Gyori, Benjamin M., Gireedhar Venkatachalam, P. S. Thiagarajan, David Hsu, & Marie‐Véronique Clement. (2014). OpenComet: An automated tool for comet assay image analysis. Redox Biology. 2(2). 457–465. 501 indexed citations breakdown →

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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