| Naslov: | PBPK model code associated to the journal article entitled: "Making PBPK models more reproducible in practice" : Version v2 |
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| Avtorji: | ID Domínguez-Romero, Elena (Avtor)
ID Mazurenko, Stanislav (Avtor)
ID Scheringer, Martin (Avtor)
ID Martins dos Santos, Vitor A. P. (Avtor)
ID Evelo, Chris T (Avtor)
ID Anton, Mihail (Avtor)
ID Hancock, John M. (Avtor)
ID Županič, Anže (Avtor)
ID Suarez-Diez, Maria (Avtor) |
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| Datoteke: |  URL - Izvorni URL, za dostop obiščite https://zenodo.org/records/13838845
 ZIP - Programska oprema, prenos (661,21 KB)
MD5: E6926F20DF6BE93E76A3FD2FD4EE57D2
 JSON - Metapodatki, prenos (8,54 KB)
MD5: 3FD4276EA3E980A0B4813030D4EF8348
To gradivo ima še več datotek. Celoten seznam je na voljo
spodaj. |
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| Jezik: | Angleški jezik |
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| Tipologija: | 2.20 - Zaključena znanstvena zbirka raziskovalnih podatkov |
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| Organizacija: |  NIB - Nacionalni inštitut za biologijo
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| Povzetek: | Physiologically-based pharmacokinetic (PBPK) model code associated to the journal article by: E. Domínguez-Romero, S. Mazurenko, M. Scheringer, V. A. P. Martins dos Santos, C. T. Evelo, M. Anton, J. M. Hancock, A. Županič, M. Suarez-Diez, entitled: Making PBPK models more reproducible in practice (Briefings in Bioinformatics, Volume 25, Issue 6, November 2024, bbae569, https://doi.org/10.1093/bib/bbae569).
The code is provided in MATLAB and SBML formats. The following files can be found here:
"PBPK_code_EDR_et_al_vs4.m": model code in MATLAB format. This is the 4th version of the code. The mathematical model is described by Domínguez-Romero et al., and more succinctly explained within the code (annotations). When this code is run in MATLAB, we obtain the next file:
"Model_variables_numeric_results.xls": numeric results obtained by model simulation in MATLAB.
"SM2_PBPK_code_EDR_et_al_final4_test_trigger.xml": model code in SBML format, obtained by conversion of the MATLAB code, by using "Model ODE Converter for Creating Automated SBML Interoperability (MOCCASIN)” (Gómez et al., 2016) and COPASI tools (Tiwari et al., 2021). More details about the conversion can be found in Domínguez-Romero et al. (2024). |
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| Ključne besede: | pharmacokinetics, pharmacodynamics, mathematical modelling, standards, model code, reproducibility, SBML, MATLAB, systems biology |
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| Status publikacije: | Objavljeno |
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| Verzija publikacije: | Objavljena publikacija |
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| Datum objave: | 25.09.2024 |
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| Kraj izida: | Genève |
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| Založnik: | Zenodo |
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| Leto izida: | 2024 |
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| Št. strani: | 1 spletni vir |
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| PID: | 20.500.12556/DiRROS-29333  |
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| UDK: | 659.2:004 |
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| DOI: | 10.5281/zenodo.13838845 |
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| COBISS.SI-ID: | 274282243 |
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| Opomba: | Nasl. z nasl. zaslona;
Opis vira z dne 6. 4. 2026;
Soavtorji: Stanislav Mazurenko, Martin Scheringer, Vítor A. P. Martins dos Santos, Chris T. Evelo, Mihail Anton, John M. Hancock, Anže Županič, Maria Suarez-Diez;
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| Datum objave v DiRROS: | 08.05.2026 |
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| Število ogledov: | 20 |
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| Število prenosov: | 16 |
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| Metapodatki: |    |
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