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Bilal Shaikh
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BioSimulators: a central registry of simulation engines and services for recommending specific tools
B Shaikh, LP Smith, D Vasilescu, G Marupilla, M Wilson, E Agmon, ...
Nucleic acids research 50 (W1), W108-W114, 2022
162022
Datanator: an integrated database of molecular data for quantitatively modeling cellular behavior
YD Roth, Z Lian, S Pochiraju, B Shaikh, JR Karr
Nucleic Acids Research 49 (D1), D516-D522, 2021
152021
RunBioSimulations: an extensible web application that simulates a wide range of computational modeling frameworks, algorithms, and formats
B Shaikh, G Marupilla, M Wilson, ML Blinov, II Moraru, JR Karr
Nucleic Acids Research, 6, 2021
142021
BpForms and BcForms: a toolkit for concretely describing non-canonical polymers and complexes to facilitate global biochemical networks
PF Lang, Y Chebaro, X Zheng, JAP Sekar, B Shaikh, DA Natale, JR Karr
Genome biology 21 (1), 1-21, 2020
132020
Salts and energy balance: A special role for dietary salts in metabolic syndrome
CW Brey, S Akbari-Alavijeh, J Ling, J Sheagley, B Shaikh, F Al-Mohanna, ...
Clinical nutrition 38 (5), 1971-1985, 2019
112019
ObjTables: structured spreadsheets that promote data quality, reuse, and integration
JR Karr, W Liebermeister, AP Goldberg, JAP Sekar, B Shaikh
arXiv preprint arXiv:2005.05227, 2020
7*2020
Integrated models, model languages, model repositories, simulation experiments, simulation tools and data visualizations enable facile model reuse with biosimulations
B Shaikh, LP Smith, ML Blinov, HM Sauro, II Moraru, JR Karr
Biophysical Journal 121 (3), 127a, 2022
2022
SED-ML Validator: tool for debugging simulation experiments
B Shaikh, AP Freiburger, M König, FT Bergmann, DP Nickerson, ...
arXiv preprint arXiv:2106.00844, 2021
2021
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Articles 1–8