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1.
Symbolic kinetic models in python (SKiMpy): intuitive modeling of large-scale biological kinetic models.
Bioinformatics
; 39(1)2023 01 01.
Article
in English
| MEDLINE | ID: mdl-36495209
2.
The effects of model complexity and size on metabolic flux distribution and control: case study in Escherichia coli.
BMC Bioinformatics
; 22(1): 134, 2021 Mar 20.
Article
in English
| MEDLINE | ID: mdl-33743594
3.
pyTFA and matTFA: a Python package and a Matlab toolbox for Thermodynamics-based Flux Analysis.
Bioinformatics
; 35(1): 167-169, 2019 01 01.
Article
in English
| MEDLINE | ID: mdl-30561545
4.
Kinetic models of metabolism that consider alternative steady-state solutions of intracellular fluxes and concentrations.
Metab Eng
; 52: 29-41, 2019 03.
Article
in English
| MEDLINE | ID: mdl-30455161
5.
redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models.
PLoS Comput Biol
; 13(7): e1005444, 2017 Jul.
Article
in English
| MEDLINE | ID: mdl-28727725
6.
Spatial proteomic and phospho-proteomic organization in three prototypical cell migration modes.
Proteome Sci
; 12: 23, 2014.
Article
in English
| MEDLINE | ID: mdl-24987309
7.
Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing.
Nat Biotechnol
; 38(4): 504, 2020 Apr.
Article
in English
| MEDLINE | ID: mdl-32265554
8.
Rites of passage: requirements and standards for building kinetic models of metabolic phenotypes.
Curr Opin Biotechnol
; 36: 146-53, 2015 Dec.
Article
in English
| MEDLINE | ID: mdl-26342586
9.
MEMOTE for standardized genome-scale metabolic model testing.
Nat Biotechnol
; 38(3): 272-276, 2020 03.
Article
in English
| MEDLINE | ID: mdl-32123384
10.
Prediction stability in a data-based, mechanistic model of σF regulation during sporulation in Bacillus subtilis.
Sci Rep
; 3: 2755, 2013 Sep 25.
Article
in English
| MEDLINE | ID: mdl-24067622
11.
Predictive models for cellular signaling networks.
Methods Mol Biol
; 880: 1-22, 2012.
Article
in English
| MEDLINE | ID: mdl-23361978
12.
Analyzing and constraining signaling networks: parameter estimation for the user.
Methods Mol Biol
; 880: 23-39, 2012.
Article
in English
| MEDLINE | ID: mdl-23361979
13.
A computational analysis of the dynamic roles of talin, Dok1, and PIPKI for integrin activation.
PLoS One
; 6(11): e24808, 2011.
Article
in English
| MEDLINE | ID: mdl-22110576
14.
Plasticity of TGF-ß signaling.
BMC Syst Biol
; 5: 184, 2011 Nov 03.
Article
in English
| MEDLINE | ID: mdl-22051045
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