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OpenAlex Citation Counts

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OpenAlex is a bibliographic catalogue of scientific papers, authors and institutions accessible in open access mode, named after the Library of Alexandria. It's citation coverage is excellent and I hope you will find utility in this listing of citing articles!

If you click the article title, you'll navigate to the article, as listed in CrossRef. If you click the Open Access links, you'll navigate to the "best Open Access location". Clicking the citation count will open this listing for that article. Lastly at the bottom of the page, you'll find basic pagination options.

Requested Article:

Molecular dynamics simulation of an entire cell
Jan A. Stevens, Fabian Grünewald, P. A. Marco van Tilburg, et al.
Frontiers in Chemistry (2023) Vol. 11
Open Access | Times Cited: 79

Showing 1-25 of 79 citing articles:

Pragmatic Coarse-Graining of Proteins: Models and Applications
Luís Borges-Araújo, Ilias Patmanidis, Akhil Pratap Singh, et al.
Journal of Chemical Theory and Computation (2023) Vol. 19, Iss. 20, pp. 7112-7135
Open Access | Times Cited: 36
Integrating cellular electron microscopy with multimodal data to explore biology across space and time
Caitlyn L McCafferty, Sven Klumpe, Rommie E. Amaro, et al.
Cell (2024) Vol. 187, Iss. 3, pp. 563-584
Open Access | Times Cited: 33
GōMartini 3: From large conformational changes in proteins to environmental bias corrections
Paulo C. T. Souza, Luís Borges-Araújo, Chris Brasnett, et al.
bioRxiv (Cold Spring Harbor Laboratory) (2024)
Open Access | Times Cited: 13
CHARMM-GUI Multicomponent Assembler for modeling and simulation of complex multicomponent systems
Nathan R. Kern, Jumin Lee, Yeol Kyo Choi, et al.
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 12
The SIRAH force field: A suite for simulations of complex biological systems at the coarse-grained and multiscale levels
Florencia Klein, Martín Sóñora, Lucianna Helene Santos, et al.
Journal of Structural Biology (2023) Vol. 215, Iss. 3, pp. 107985-107985
Open Access | Times Cited: 21
OLIVES: A Go̅-like Model for Stabilizing Protein Structure via Hydrogen Bonding Native Contacts in the Martini 3 Coarse-Grained Force Field
Kasper B. Pedersen, Luís Borges-Araújo, Amanda D. Stange, et al.
Journal of Chemical Theory and Computation (2024)
Open Access | Times Cited: 9
Reduction-to-synthesis: the dominant approach to genome-scale synthetic biology
Kangsan Kim, Donghui Choe, Suhyung Cho, et al.
Trends in biotechnology (2024) Vol. 42, Iss. 8, pp. 1048-1063
Open Access | Times Cited: 8
Mesoscale simulation of biomembranes with FreeDTS
Weria Pezeshkian, John H. Ipsen
Nature Communications (2024) Vol. 15, Iss. 1
Open Access | Times Cited: 7
Progress, Challenges and Opportunities of NMR and XL-MS for Cellular Structural Biology
Zeting Zhang, Qun Zhao, Zhou Gong, et al.
JACS Au (2024) Vol. 4, Iss. 2, pp. 369-383
Open Access | Times Cited: 7
Permeability Benchmarking: Guidelines for Comparing in Silico, in Vitro, and in Vivo Measurements
Christian Jorgensen, Raleigh M. Linville, Ian Galea, et al.
Journal of Chemical Information and Modeling (2025)
Open Access
Computational Methods for Modeling Lipid-Mediated Active Pharmaceutical Ingredient Delivery
Markéta Paloncýová, Mariana Valério, Ricardo Nascimento dos Santos, et al.
Molecular Pharmaceutics (2025)
Open Access
Automatic Optimization of Lipid Models in the Martini Force Field Using SwarmCG
Charly Empereur‐mot, Kasper B. Pedersen, Riccardo Capelli, et al.
Journal of Chemical Information and Modeling (2023) Vol. 63, Iss. 12, pp. 3827-3838
Open Access | Times Cited: 18
Building the next generation of virtual cells to understand cellular biology
Graham T. Johnson, Eran Agmon, Matthew Akamatsu, et al.
Biophysical Journal (2023) Vol. 122, Iss. 18, pp. 3560-3569
Open Access | Times Cited: 14
Martinize2 and Vermouth: Unified Framework for Topology Generation
P. Kroon, Fritz Grunewald, Jonathan Barnoud, et al.
(2023)
Open Access | Times Cited: 14
From complex data to clear insights: visualizing molecular dynamics trajectories
Hayet Belghit, Mariano Spivak, Manuel Dauchez, et al.
Frontiers in Bioinformatics (2024) Vol. 4
Open Access | Times Cited: 5
Martinize2 and Vermouth: Unified Framework for Topology Generation
PC Kroon, Fritz Grunewald, Jonathan Barnoud, et al.
(2024)
Open Access | Times Cited: 5
Advancing Force Fields Parameterization: A Directed Graph Attention Networks Approach
Gong Chen, Théo Jaffrelot Inizan, Thomas Plé, et al.
Journal of Chemical Theory and Computation (2024) Vol. 20, Iss. 13, pp. 5558-5569
Closed Access | Times Cited: 5
Martini on the Rocks: Can a Coarse-Grained Force Field Model Crystals?
A. Hosseini, David van der Spoel
The Journal of Physical Chemistry Letters (2024) Vol. 15, Iss. 4, pp. 1079-1088
Open Access | Times Cited: 4
The GōMartini Approach: Revisiting the Concept of Contact Maps and the Modelling of Protein Complexes
Luis Fernando Cofas‐Vargas, Renato de Azevedo Moreira, Simón Poblete, et al.
Acta Physica Polonica A (2024) Vol. 145, Iss. 3, pp. S9-S20
Open Access | Times Cited: 4
Development of nano-delivery systems for loaded bioactive compounds: using molecular dynamics simulations
Lihang Chen, Jiang‐Ning Hu
Critical Reviews in Food Science and Nutrition (2024), pp. 1-22
Closed Access | Times Cited: 3
Physical models of bacterial chromosomes
Janni Harju, Chase P. Broedersz
Molecular Microbiology (2024)
Open Access | Times Cited: 3
A new paradigm for molecular dynamics databases: the COVID-19 database, the legacy of a titanic community effort
Daniel Beltrán, Adam Hospital, Josep Lluís Gelpi, et al.
Nucleic Acids Research (2023) Vol. 52, Iss. D1, pp. D393-D403
Open Access | Times Cited: 10
Molecular Dynamics Simulation Studies of Bile, Bile Salts, Lipid-Based Drug Formulations, and mRNA–Lipid Nanoparticles: A Review
Amali G. Guruge, Dallas B. Warren, Colin W. Pouton, et al.
Molecular Pharmaceutics (2023) Vol. 20, Iss. 6, pp. 2781-2800
Closed Access | Times Cited: 8
A brief history of visualizing membrane systems in molecular dynamics simulations
Robin A. Corey, Marc Baaden, Matthieu Chavent
Frontiers in Bioinformatics (2023) Vol. 3
Open Access | Times Cited: 8
Computational microbiology of bacteria: Advancements in molecular dynamics simulations
Syma Khalid, Astrid F. Brandner, Nikolai Juraschko, et al.
Structure (2023) Vol. 31, Iss. 11, pp. 1320-1327
Open Access | Times Cited: 8
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