TY  - JOUR
A1  - Larhlimi, Abdelhalim
A1  - Blachon, Sylvain
A1  - Selbig, Joachim
A1  - Nikoloski, Zoran
T1  - Robustness of metabolic networks a review of existing definitions
JF  - Biosystems : journal of biological and information processing sciences
N2  - Describing the determinants of robustness of biological systems has become one of the central questions in systems biology. Despite the increasing research efforts, it has proven difficult to arrive at a unifying definition for this important concept. We argue that this is due to the multifaceted nature of the concept of robustness and the possibility to formally capture it at different levels of systemic formalisms (e.g, topology and dynamic behavior). Here we provide a comprehensive review of the existing definitions of robustness pertaining to metabolic networks. As kinetic approaches have been excellently reviewed elsewhere, we focus on definitions of robustness proposed within graph-theoretic and constraint-based formalisms.
KW  - Robustness
KW  - Metabolic networks
KW  - Graph theory
KW  - Constraint-based approaches
Y1  - 2011
U6  - https://doi.org/10.1016/j.biosystems.2011.06.002
SN  - 0303-2647
VL  - 106
IS  - 1
SP  - 1
EP  - 8
PB  - Elsevier
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Arnold, Anne
A1  - Nikoloski, Zoran
T1  - A quantitative comparison of Calvin-Benson cycle models
JF  - Trends in plant science
N2  - The Calvin-Benson cycle (CBC) provides the precursors for biomass synthesis necessary for plant growth. The dynamic behavior and yield of the CBC depend on the environmental conditions and regulation of the cellular state. Accurate quantitative models hold the promise of identifying the key determinants of the tightly regulated CBC function and their effects on the responses in future climates. We provide an integrative analysis of the largest compendium of existing models for photosynthetic processes. Based on the proposed ranking, our framework facilitates the discovery of best-performing models with regard to metabolomics data and of candidates for metabolic engineering.
Y1  - 2011
U6  - https://doi.org/10.1016/j.tplants.2011.09.004
SN  - 1360-1385
VL  - 16
IS  - 12
SP  - 676
EP  - 683
PB  - Elsevier
CY  - London
ER  -