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BioSimulators: a central registry of simulation engines and services for recommending specific tools.
Nucleic Acids Res. 2022 Jul 5;50(W1):W108-W114. doi: 10.1093/nar/gkac331.
Nucleic Acids Res. 2022.
PMID: 35524558
Free PMC article.
Best Practices for Making Reproducible Biochemical Models.
Porubsky VL, Goldberg AP, Rampadarath AK, Nickerson DP, Karr JR, Sauro HM.
Porubsky VL, et al. Among authors: rampadarath ak.
Cell Syst. 2020 Aug 26;11(2):109-120. doi: 10.1016/j.cels.2020.06.012.
Cell Syst. 2020.
PMID: 32853539
Free PMC article.
Review.
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libOmexMeta: enabling semantic annotation of models to support FAIR principles.
Welsh C, Nickerson DP, Rampadarath A, Neal ML, Sauro HM, Gennari JH.
Welsh C, et al.
Bioinformatics. 2021 Dec 11;37(24):4898-4900. doi: 10.1093/bioinformatics/btab445.
Bioinformatics. 2021.
PMID: 34132740
Free PMC article.
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Improving reproducibility in computational biology research.
Papin JA, Mac Gabhann F, Sauro HM, Nickerson D, Rampadarath A.
Papin JA, et al.
PLoS Comput Biol. 2020 May 19;16(5):e1007881. doi: 10.1371/journal.pcbi.1007881. eCollection 2020 May.
PLoS Comput Biol. 2020.
PMID: 32427998
Free PMC article.
No abstract available.
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NLIMED: Natural Language Interface for Model Entity Discovery in Biosimulation Model Repositories.
Munarko Y, Sarwar DM, Rampadarath A, Atalag K, Gennari JH, Neal ML, Nickerson DP.
Munarko Y, et al.
Front Physiol. 2022 Feb 24;13:820683. doi: 10.3389/fphys.2022.820683. eCollection 2022.
Front Physiol. 2022.
PMID: 35283794
Free PMC article.
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An in silico study examining the role of airway smooth muscle dynamics and airway compliance on the rate of airway re-narrowing after deep inspiration.
Rampadarath AK, Donovan GM.
Rampadarath AK, et al.
Respir Physiol Neurobiol. 2020 Jan;271:103257. doi: 10.1016/j.resp.2019.103257. Epub 2019 Sep 19.
Respir Physiol Neurobiol. 2020.
PMID: 31542658
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A Distribution-Moment Approximation for Coupled Dynamics of the Airway Wall and Airway Smooth Muscle.
Rampadarath AK, Donovan GM.
Rampadarath AK, et al.
Biophys J. 2018 Jan 23;114(2):493-501. doi: 10.1016/j.bpj.2017.11.020.
Biophys J. 2018.
PMID: 29401446
Free PMC article.
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