Table 1 Key publications in apoptosis systems modeling
From: System-based approaches as prognostic tools for glioblastoma
Year | Author | Major findings | Ref. |
|---|---|---|---|
2000 | Fussenegger et al. | Theoretical study on mitochondrial permeabilization induced by BCL-2 family proteins | [127] |
2004 | Eissing et al. | Theoretical study analysing death receptor-induced apoptosis including bistability analysis | [128] |
2004 | Bentele et al. | ODE-based modelling of apoptosis signalling supported by quantitative Western blotting | [125] |
2005 | Stucki et al. | Theoretical study into mitochondrial cytochrome-c and SMAC release on caspase activation | [129] |
2006 | Rehm et al. | First study that combined single cell imaging and ODE modelling of caspase activation in response to mitochondrial permeabilization (MOMP) | [47] |
2006 | Bagci et al. & Legewie et al. | Theoretical studies that highlighted positive feedback loops which guarantee bistability subsequent to MOMP and co-operation in Apaf-1 oligomerisation | |
2007 | Chen et al. | Theoretical study on Bax-activation | [132] |
2007 | Lavrik et al. | Introduced robustness analysis into the field. Provided structural model of extrinsic apoptosis induced by CD95/Apo-1 | [133] |
2007 | Eissing et al. | Theoretical studies to evaluate robustness of computational models against parameter variations | |
2008 | Albeck et al. | Combined study employing live cell imaging of caspase activation and MOMP, flow cytometry, immunoblotting and modelling during death receptor-induced apoptosis | [126] |
2009 | Zhang et al. | Theoretical study into how genotoxic stress proceeds to MOMP and caspase activation | [136] |
2009 | Chen et al. & Dussmann et al. | Application of stochastic models based on cellular automata (CA) to study Bax activation in mitochondrial membranes during apoptosis | |
2009 & 2010 | Rehm et al. & Huber et al. | Spatial signal propagation during apoptosis signalling including experimental testing and mathematical modelling using partial differential equations (PDE) | |
2011 | Aldridge et al. | Combined in silico and wet-lab analyses focussed on TRAIL-induced apoptosis | [139] |
2011 | Lau et al. | Identification of spatial and temporal aspects of apoptosis signalling | [140] |
2012 | Hector et al. | Clinical application of caspase modelling to predict recurrence in CRC | [13] |
2012 | Lee et al. | Combined study employing mathematical modelling and wet-lab validation identifying optimal treatment scheduling for apoptosis re-sensitization | [141] |
2012 | Gaudet et al. | Comprehensive assessment with sensitivity analyses of the impact of cell-to-cell deviations in protein concentrations on apoptosis dynamics | [142] |
2012 | Schleich et al. | Combined theoretical and wet-lab analyses into the role of apoptosis activation by caspase-8 | [143] |
2013 | Lindner et al. | Use of BCL-2 systems analysis to predict patient response to chemotherapy in CRC | [18] |
2013 | Murphy et al. | Use of systems analysis to predict progression-free survival in GBM | [17] |
2014 | Kallenberger et al. | Combined in silico and wet-lab study into the regulation of apoptosis by caspase-8 | [144] |
2014 & 2015 | Bertaux et al. & Roux et al. | Theoretical study investigating fractional killing in apoptosis | |
2015 & 2016 | Zhao et al. & Li et al. | Theoretical study into the role played by mutations in apoptosis signalling | |
2017 | Salvucci et al. | Large scale validation of caspase modelling as independent prognostic biomarker in CRC and refinement of the prognostic power of apoptosis systems models with machine learning | [19] |
2017 | Lindner et al. | Large scale validation of BCL-2 modelling as independent prognostic biomarker in CRC and analysis of apoptosis systems models in molecular subtypes of CRC | [20] |
2018 | Márquez-Jurado et al. | Study combining mathematical modelling with experimental microscopy data focussed on the role played by mitochondria in regulating apoptosis | [149] |
2018 | Hantusch et al. | Regulation of BCL-XL via Bax retrotranslocation | [150] |