Systematic identifiability testing for unambiguous mechanistic modeling – application to JAK-STAT, MAP kinase, and NF-κ B signaling pathway models

Quaiser, Tom; Mönnigmann, Martin

doi:10.1186/1752-0509-3-50

Cited by 101 publications

(119 citation statements)

References 35 publications

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“…As remedy for this problem methods to increase the identifiability of model parameters and to deal with unsure parameters have been developed (e.g. [35][36][37]89]). …”

Section: Quantitative Analyses Of Il-6-induced Signalingmentioning

confidence: 99%

Systems biology of IL-6, IL-12 family cytokines

Dittrich

Hessenkemper

Schaper

2015

Cytokine & Growth Factor Reviews

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“…As remedy for this problem methods to increase the identifiability of model parameters and to deal with unsure parameters have been developed (e.g. [35][36][37]89]). …”

Section: Quantitative Analyses Of Il-6-induced Signalingmentioning

confidence: 99%

Systems biology of IL-6, IL-12 family cytokines

Dittrich

Hessenkemper

Schaper

2015

Cytokine & Growth Factor Reviews

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“…Many different approaches to the problem exist including (i) Pohjanpalo's power series expansion (Pohjanpalo, 1978), (ii) application of Fliess' series expansion (Tunali & Tarn, 1987;Walter & Pronzato, 1996) (iii) application of non-linear control theory and, more specifically, non-linear observability (Hermann & Krener, 1977;Isidori, 1989;Kwatny & Blankenship, 2000), (iii) the similarity transformation approach (Denis-Vidal & Joly-Blanchard, 2004;Denis-Vidal, Joly-Blanchard, & Noiret, 2001;Tunali & Tarn, 1987), (iv) differential algebra methods (Anguelova, Karlsson, & Jirstrand, 2012;Denis-Vidal et al, 2001;Ljung & Glad, 1994;Saccomani, 2004;Saccomani, Audoly, & D'Angió, 2003;Sedoglavic, 2002), and (v) a sensitivity based analysis (Brun & Reichert, 2001;Quaiser & Mönnigmann, 2009). A summary of the various approaches can be found in a recent review paper by Miao and co-workers (Miao, Xia, Perelson, & Wu, 2011).…”

Section: Introductionmentioning

confidence: 99%

A fast algorithm to assess local structural identifiability

Stigter

Molenaar

2015

Automatica

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“…The mechanistic models are shown not to be identifiable using the procedure reported in [30] and the parameter identifiability test presented in [31]. Jolly act…”

Section: Tpp Ligandmentioning

confidence: 99%

Comparison between phosphine and NHC-modified Pd catalysts in the telomerization of butadiene with methanol – A kinetic study combined with model-based experimental analysis

Völkl

Recker

Niedermaier

et al. 2015

Journal of Catalysis

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Comparison between phosphine and NHC-modified Pd catalysts in the telomerization of butadiene with methanol ndash a kinetic study combined with model-based experimental analysis, Chemical Engineering and Processing http://dx.doi.org/10. 1016/j.cep.2015.07.007 This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.Comparison between phosphine and NHC-modified Pd catalysts in the telomerization of butadiene with methanol -a kinetic study combined with model-based experimental analysis The telomerization of butadiene with methanol was investigated in the presence of different palladium catalysts modified either with triphenylphosphine (TPP) or 1,3-dimesityl-imidazol-2-ylidene (IMes) ligand. When pure butadiene was used as substrate, a moderate selectivity for the Pd-TPP catalyst toward the desired product 1-methoxy-2,7-octadiene (1-Mode) of around 87 % was obtained, while the IMes carbene ligand almost exclusively formed 1-Mode with 97.5 % selectivity. The selectivity remained unchanged when the pure butadiene feed was replaced by synthetic crack-C 4 (sCC 4 ), a technical feed of 45 mol % butadiene and 55 mol % inerts (butenes and butanes). The TPP-modified catalyst showed a lower reaction rate, which was attributed to the expected dilution effect caused by the inerts. Surprisingly, the IMes-modified catalyst showed a higher rate with sCC 4 compared to the pure feed. By means of a model-based experimental analysis, kinetic rate equations could be derived. The kinetic modeling supports the assumption that the two catalyst systems follow different kinetic rate equations. For the Pd-TPP catalyst, the reaction kinetics were related to the Jolly mechanism. In contrast, the Jolly mechanism had to be adapted for the Pd-IMes catalyst as the impact of the base seems to differ strongly from that for the Pd-TPP catalyst. The Pd-IMes system was found to be zero order in butadiene at moderate to high butadiene concentrations and first order in base while the nucleophilicity of the base is influenced by the methanol amount resulting in a negative reaction order for methanol.

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Systematic identifiability testing for unambiguous mechanistic modeling – application to JAK-STAT, MAP kinase, and NF-κ B signaling pathway models

Cited by 101 publications

References 35 publications

Systems biology of IL-6, IL-12 family cytokines

Systems biology of IL-6, IL-12 family cytokines

A fast algorithm to assess local structural identifiability

Comparison between phosphine and NHC-modified Pd catalysts in the telomerization of butadiene with methanol – A kinetic study combined with model-based experimental analysis

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