Tongye Shen

2.6k total citations
68 papers, 2.0k citations indexed

About

Tongye Shen is a scholar working on Molecular Biology, Materials Chemistry and Computational Theory and Mathematics. According to data from OpenAlex, Tongye Shen has authored 68 papers receiving a total of 2.0k indexed citations (citations by other indexed papers that have themselves been cited), including 47 papers in Molecular Biology, 14 papers in Materials Chemistry and 10 papers in Computational Theory and Mathematics. Recurrent topics in Tongye Shen's work include Protein Structure and Dynamics (32 papers), Enzyme Structure and Function (13 papers) and Computational Drug Discovery Methods (10 papers). Tongye Shen is often cited by papers focused on Protein Structure and Dynamics (32 papers), Enzyme Structure and Function (13 papers) and Computational Drug Discovery Methods (10 papers). Tongye Shen collaborates with scholars based in United States, Philippines and Russia. Tongye Shen's co-authors include J. Andrew McCammon, Donald Hamelberg, S. Gnanakaran, Peter G. Wolynes, Kaihsu Tai, Richard H. Henchman, Ricky B. Nellas, Chenghang Zong, Paul Langan and Marios Philippopoulos and has published in prestigious journals such as Proceedings of the National Academy of Sciences, Journal of the American Chemical Society and Physical Review Letters.

In The Last Decade

Tongye Shen

65 papers receiving 2.0k citations

Peers — A (Enhanced Table)

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

Name h Career Trend Papers Cites
Tongye Shen United States 27 1.4k 344 271 233 220 68 2.0k
Austin B. Yongye United States 17 1.5k 1.1× 329 1.0× 277 1.0× 296 1.3× 120 0.5× 30 2.5k
Johnny Habchi United Kingdom 32 1.9k 1.4× 410 1.2× 299 1.1× 94 0.4× 152 0.7× 57 3.1k
Srivatsan Raman United States 25 2.9k 2.1× 642 1.9× 247 0.9× 268 1.2× 127 0.6× 47 3.7k
André H. Juffer Finland 22 1.5k 1.1× 392 1.1× 215 0.8× 214 0.9× 57 0.3× 69 2.5k
Bjørn Olav Brandsdal Norway 31 2.2k 1.6× 669 1.9× 378 1.4× 105 0.5× 106 0.5× 65 3.1k
Riccardo Pellarin France 32 2.4k 1.8× 584 1.7× 225 0.8× 69 0.3× 130 0.6× 57 3.2k
Semen Yesylevskyy Ukraine 24 1.6k 1.2× 333 1.0× 94 0.3× 354 1.5× 67 0.3× 81 2.2k
Jooyoung Lee South Korea 27 1.9k 1.4× 877 2.5× 325 1.2× 165 0.7× 80 0.4× 69 3.0k
Kevin L. Weiss United States 26 1.1k 0.8× 631 1.8× 216 0.8× 136 0.6× 83 0.4× 77 1.8k
Joanna I. Sułkowska Poland 34 2.4k 1.8× 768 2.2× 152 0.6× 124 0.5× 129 0.6× 86 3.1k

Countries citing papers authored by Tongye Shen

Since Specialization
Citations

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

Fields of papers citing papers by Tongye Shen

Since Specialization
Physical SciencesHealth SciencesLife SciencesSocial Sciences

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

Co-authorship network of co-authors of Tongye Shen

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

All Works

20 of 20 papers shown
1.
2.
Shen, Tongye, et al.. (2024). Node features of chromosome structure networks and their connections to genome annotation. Computational and Structural Biotechnology Journal. 23. 2240–2250.
3.
4.
Mansbach, Rachael A., et al.. (2021). Effects of pH on an IDP conformational ensemble explored by molecular dynamics simulation. Biophysical Chemistry. 271. 106552–106552. 20 indexed citations
5.
Shen, Tongye, et al.. (2021). Protein conformational switch discerned via network centrality properties. Computational and Structural Biotechnology Journal. 19. 3599–3608. 33 indexed citations
6.
McCord, Rachel Patton, et al.. (2020). Using contact statistics to characterize structure transformation of biopolymer ensembles. Physical review. E. 101(1). 12419–12419. 5 indexed citations
7.
Daniels, Marcus, Anurag Sethi, Tongye Shen, et al.. (2012). A coarse-grained model for synergistic action of multiple enzymes on cellulose. Biotechnology for Biofuels. 5(1). 55–55. 30 indexed citations
8.
Lynch, Rebecca M., Rong Rong, Bing Li, et al.. (2010). Subtype-specific conservation of isoleucine 309 in the envelope V3 domain is linked to immune evasion in subtype C HIV-1 infection. Virology. 404(1). 59–70. 16 indexed citations
9.
Bellesia, Giovanni, et al.. (2010). In silicostudies of crystalline cellulose and its degradation by enzymes. Acta Crystallographica Section D Biological Crystallography. 66(11). 1184–1188. 25 indexed citations
10.
Lynch, Rebecca M., Tongye Shen, S. Gnanakaran, & Cynthia A. Derdeyn. (2009). Appreciating HIV Type 1 Diversity: Subtype Differences in Env. AIDS Research and Human Retroviruses. 25(3). 237–248. 63 indexed citations
11.
Shen, Tongye & S. Gnanakaran. (2009). The Stability of Cellulose: A Statistical Perspective from a Coarse-Grained Model of Hydrogen-Bond Networks. Biophysical Journal. 96(8). 3032–3040. 106 indexed citations
12.
Lu, Ting, Tongye Shen, Chenghang Zong, Jeff Hasty, & Peter G. Wolynes. (2006). Statistics of cellular signal transduction as a race to the nucleus by multiple random walkers in compartment/phosphorylation space. Proceedings of the National Academy of Sciences. 103(45). 16752–16757. 22 indexed citations
13.
Zong, Chenghang, Corey J. Wilson, Tongye Shen, Peter G. Wolynes, & Pernilla Wittung‐Stafshede. (2006). φ-Value Analysis of Apo-Azurin Folding:  Comparison between Experiment and Theory. Biochemistry. 45(20). 6458–6466. 22 indexed citations
14.
Zong, Chenghang, Ting Lu, Tongye Shen, & Peter G. Wolynes. (2006). Nonequilibrium self-assembly of linear fibers: microscopic treatment of growth, decay, catastrophe and rescue. Physical Biology. 3(1). 83–92. 17 indexed citations
15.
Chang, Chia‐en A., Tongye Shen, Joanna Trylska, Valentina Tozzini, & J. Andrew McCammon. (2006). Gated Binding of Ligands to HIV-1 Protease: Brownian Dynamics Simulations in a Coarse-Grained Model. Biophysical Journal. 90(11). 3880–3885. 69 indexed citations
16.
Hamelberg, Donald, Tongye Shen, & J. Andrew McCammon. (2005). Relating kinetic rates and local energetic roughness by accelerated molecular-dynamics simulations. The Journal of Chemical Physics. 122(24). 241103–241103. 70 indexed citations
17.
Hamelberg, Donald, Tongye Shen, & J. Andrew McCammon. (2005). Phosphorylation Effects on cis/trans Isomerization and the Backbone Conformation of Serine−Proline Motifs:  Accelerated Molecular Dynamics Analysis. Journal of the American Chemical Society. 127(6). 1969–1974. 81 indexed citations
18.
Shen, Tongye, Christoph P. Hofmann, Mikael Oliveberg, & Peter G. Wolynes. (2005). Scanning Malleable Transition State Ensembles:  Comparing Theory and Experiment for Folding Protein U1A. Biochemistry. 44(17). 6433–6439. 28 indexed citations
19.
Henchman, Richard H., Kaihsu Tai, Tongye Shen, & J. Andrew McCammon. (2002). Properties of Water Molecules in the Active Site Gorge of Acetylcholinesterase from Computer Simulation. Biophysical Journal. 82(5). 2671–2682. 49 indexed citations
20.
Tai, Kaihsu, Tongye Shen, Ulf Börjesson, Marios Philippopoulos, & J. Andrew McCammon. (2001). Analysis of a 10-ns Molecular Dynamics Simulation of Mouse Acetylcholinesterase. Biophysical Journal. 81(2). 715–724. 136 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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