Thomas Simonson

22.6k total citations · 2 hit papers
128 papers, 20.4k citations indexed

About

Thomas Simonson is a scholar working on Molecular Biology, Materials Chemistry and Atomic and Molecular Physics, and Optics. According to data from OpenAlex, Thomas Simonson has authored 128 papers receiving a total of 20.4k indexed citations (citations by other indexed papers that have themselves been cited), including 104 papers in Molecular Biology, 41 papers in Materials Chemistry and 28 papers in Atomic and Molecular Physics, and Optics. Recurrent topics in Thomas Simonson's work include Protein Structure and Dynamics (77 papers), RNA and protein synthesis mechanisms (45 papers) and Enzyme Structure and Function (36 papers). Thomas Simonson is often cited by papers focused on Protein Structure and Dynamics (77 papers), RNA and protein synthesis mechanisms (45 papers) and Enzyme Structure and Function (36 papers). Thomas Simonson collaborates with scholars based in France, United States and Cyprus. Thomas Simonson's co-authors include Axel T. Brünger, Luke M. Rice, John Kuszewski, Michaël Nilges, Jiansheng Jiang, Ralf W. Grosse‐Kunstleve, Warren L. DeLano, Randy J. Read, Gregory L. Warren and Piet Gros and has published in prestigious journals such as Proceedings of the National Academy of Sciences, Journal of the American Chemical Society and Journal of Biological Chemistry.

In The Last Decade

Thomas Simonson

127 papers receiving 20.2k 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.

Crystallography & NMR System: A New Software Suite for Macromolecular Structure Determination

1998 14.9k citations Thomas Simonson et al. profile →
Implicit solvent models

1999 699 citations Benoı̂t Roux, Thomas Simonson profile →

Peers — A (Enhanced Table)

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

Name	h						Papers	Cites
Thomas Simonson France	36	15.7k	4.7k	2.2k	1.8k	1.7k	128	20.4k
C. Nick Pace United States	60	15.7k 1.0×	6.1k 1.3×	1.4k 0.6×	1.3k 0.7×	1.8k 1.1×	202	21.1k
Elizabeth Villa United States	39	14.0k 0.9×	3.1k 0.7×	1.3k 0.6×	2.2k 1.2×	1.7k 1.0×	83	20.5k
James C. Gumbart United States	41	14.0k 0.9×	3.2k 0.7×	2.1k 1.0×	2.4k 1.4×	1.2k 0.7×	154	20.5k
Todd O. Yeates United States	67	17.9k 1.1×	3.6k 0.8×	1.7k 0.8×	1.3k 0.7×	1.0k 0.6×	199	21.7k
Yuji Goto Japan	79	15.7k 1.0×	4.2k 0.9×	1.3k 0.6×	969 0.5×	1.9k 1.2×	377	21.7k
İvet Bahar United States	74	17.1k 1.1×	6.0k 1.3×	1.1k 0.5×	1.9k 1.1×	1.7k 1.0×	373	21.7k
Gregory L. Warren United States	19	13.8k 0.9×	4.2k 0.9×	2.0k 0.9×	509 0.3×	1.6k 0.9×	32	18.8k
Kim A. Sharp United States	65	15.7k 1.0×	4.3k 0.9×	1.1k 0.5×	3.8k 2.2×	1.4k 0.8×	150	22.7k
Stephen J. Benkovic United States	84	20.8k 1.3×	4.4k 0.9×	2.7k 1.2×	1.1k 0.6×	1.8k 1.1×	457	28.6k
Carlos Simmerling United States	43	20.9k 1.3×	5.3k 1.1×	1.2k 0.5×	2.6k 1.5×	1.3k 0.8×	106	28.3k

Countries citing papers authored by Thomas Simonson

Since Specialization

Citations

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

Fields of papers citing papers by Thomas Simonson

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Thomas Simonson. 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 Thomas Simonson. The network helps show where Thomas Simonson may publish in the future.

Co-authorship network of co-authors of Thomas Simonson

This figure shows the co-authorship network connecting the top 25 collaborators of Thomas Simonson. A scholar is included among the top collaborators of Thomas Simonson 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 Thomas Simonson. Thomas Simonson 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

Simonson, Thomas, et al.. (2024). Classifying protein kinase conformations with machine learning. Protein Science. 33(4). e4918–e4918. 3 indexed citations

Simonson, Thomas, et al.. (2023). Computational protein design repurposed to explore enzyme vitality and help predict antibiotic resistance. Frontiers in Molecular Biosciences. 9. 905588–905588. 2 indexed citations

Gaillard, Thomas, et al.. (2020). Adaptive landscape flattening allows the design of both enzyme: Substrate binding and catalytic power. PLoS Computational Biology. 16(1). e1007600–e1007600. 10 indexed citations

Polydorides, Savvas, Francesco Della Villa, Thomas Gaillard, et al.. (2020). Physics-Based Computational Protein Design: An Update. The Journal of Physical Chemistry A. 124(51). 10637–10648. 16 indexed citations

Polydorides, Savvas, et al.. (2020). Hybrid MC/MD for protein design. The Journal of Chemical Physics. 153(5). 54113–54113. 11 indexed citations

Sun, Young Joo, et al.. (2020). A physics-based energy function allows the computational redesign of a PDZ domain. Scientific Reports. 10(1). 11150–11150. 6 indexed citations

Gaillard, Thomas & Thomas Simonson. (2017). Full Protein Sequence Redesign with an MMGBSA Energy Function. Journal of Chemical Theory and Computation. 13(10). 4932–4943. 9 indexed citations

Simonson, Thomas, Gerhard Hummer, & Benoı̂t Roux. (2017). Equivalence of M- and P-Summation in Calculations of Ionic Solvation Free Energies. The Journal of Physical Chemistry A. 121(7). 1525–1530. 14 indexed citations

Polydorides, Savvas, et al.. (2017). Simple models for nonpolar solvation: Parameterization and testing. Journal of Computational Chemistry. 38(29). 2509–2519. 13 indexed citations

10.

Kumar, Manjeet, Thomas Simonson, Gilles Ohanessian, & Carine Clavaguéra. (2014). Structure and Thermodynamics of Mg:Phosphate Interactions in Water: A Simulation Study. ChemPhysChem. 16(3). 658–665. 10 indexed citations

11.

Launay, Guillaume & Thomas Simonson. (2010). A large decoy set of protein–protein complexes produced by flexible docking. Journal of Computational Chemistry. 32(1). 106–120. 3 indexed citations

12.

Aleksandrov, Alexey & Thomas Simonson. (2009). A molecular mechanics model for imatinib and imatinib:kinase binding. Journal of Computational Chemistry. 31(7). 1550–1560. 25 indexed citations

13.

Busch, Marcel Schmidt am, et al.. (2009). Computational protein design as a tool for fold recognition. Proteins Structure Function and Bioinformatics. 77(1). 139–158. 24 indexed citations

14.

Busch, Marcel Schmidt am, et al.. (2008). Testing the Coulomb/Accessible Surface Area solvent model for protein stability, ligand binding, and protein design. BMC Bioinformatics. 9(1). 148–148. 27 indexed citations

15.

Noirel, Josselin & Thomas Simonson. (2007). Neutral evolution of protein-protein interactions: a computational study using simple models. BMC Structural Biology. 7(1). 79–79. 3 indexed citations

16.

Thompson, Damien, Christine Lazennec, Pierre Plateau, & Thomas Simonson. (2007). Probing electrostatic interactions and ligand binding in aspartyl‐tRNA synthetase through site‐directed mutagenesis and computer simulations. Proteins Structure Function and Bioinformatics. 71(3). 1450–1460. 13 indexed citations

17.

Simonson, Thomas, et al.. (2004). Proton Binding to Proteins: p K _a Calculations with Explicit and Implicit Solvent Models. Journal of the American Chemical Society. 126(13). 4167–4180. 243 indexed citations

18.

Simonson, Thomas. (2001). Macromolecular electrostatics: continuum models and their growing pains. Current Opinion in Structural Biology. 11(2). 243–252. 207 indexed citations

19.

Zeng, Jun, Herbert R. Treutlein, & Thomas Simonson. (1999). Molecular dynamics simulations of the Ras:Raf and Rap:Raf complexes. Proteins Structure Function and Bioinformatics. 35(1). 89–100. 14 indexed citations

20.

Simonson, Thomas & David Pérahia. (1992). Normal modes of symmetric protein assemblies. Application to the tobacco mosaic virus protein disk. Biophysical Journal. 61(2). 410–427. 48 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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