Prof. Dr. Thomas Sauter
|
|
||||||
| Faculty or Centre | Faculty of Science, Technology and Medicine | ||||||
| Department | Department of Life Sciences and Medicine | ||||||
| Postal Address |
Université du Luxembourg 6, avenue du Swing L-4367 Belvaux |
||||||
| Campus Office | BioTech II Ketterthill, 4.13 | ||||||
|
|||||||
| Telephone | (+352) 46 66 44 6296 | ||||||
- Professor of Systems Biology
- Head of the Systems Biology group
- Director of the Master in integrated systems biology
- Director of the International Master of Science in Biomedicine
Last updated on: Monday, 14 June 2021
2022
Mechanistically Coupled PK (MCPK) Model to Describe Enzyme Induction and Occupancy Dependent DDI of Dabrafenib Metabolism.; ; ;
in Pharmaceutics (2022), 14(2),
Bruceine D Identified as a Drug Candidate against Breast Cancer by a Novel Drug Selection Pipeline and Cell Viability Assay.; ; ; ; ; ;
in Pharmaceuticals (Basel, Switzerland) (2022), 15(2),
Focal adhesion kinase plays a dual role in TRAIL resistance and metastatic outgrowth of malignant melanoma; ; ; ; ; ; ; ; ; ;
in Cell Death and Disease (2022)
Project-based learning course on metabolic network modelling in computational systems biology.; ; ; ; ; ; ; ; ; ; ;
in PLoS computational biology (2022), 18(1), 1009711
2021
Degree Adjusted Large-Scale Network Analysis Reveals Novel Putative Metabolic Disease Genes.; ; ; ; ;
in Biology (2021), 10(2),
Loss of Ambra1 promotes melanoma growth and invasion.; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Nature communications (2021), 12(1), 2550
ATG5 and ATG7 Expression Levels Are Reduced in Cutaneous Melanoma and Regulated by NRF1; ; ; ; ; ; ; ; ; ; ;
in Frontiers in Oncology (2021)
Single‑nuclei chromatin profiling of ventral midbrain reveals cell identity transcription factors and cell‑type‑specific gene regulatory variation; ; ; ; ; ; ; ;
in Epigenetics and Chromatin (2021)
DCcov: Repositioning of drugs and drug combinations for SARS-CoV-2 infected lung through constraint-based modeling.; ;
in iScience (2021), 24(11), 103331
L-plastin Ser5 phosphorylation is modulated by the PI3K/SGK pathway and promotes breast cancer cell invasiveness; ; ; ; ; ;
in Cell Communication and Signaling (2021), 19(22), 1-22
A dynamic multi-tissue model to study human metabolism.; ; ;
in NPJ systems biology and applications (2021), 7(1), 5
Importance of the biomass formulation for cancer metabolic modeling and drug prediction.; ; ; ;
in iScience (2021), 24(10), 103110
IDARE2-Simultaneous Visualisation of Multiomics Data in Cytoscape.; ; ;
in Metabolites (2021), 11(5),
Stress-induced inflammation evoked by immunogenic cell death is blunted by the IRE1α kinase inhibitor KIRA6 through HSP60 targeting; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Cell Death and Differentiation (2021)
Quantitative trait locus mapping identifies a locus linked to striatal dopamine and points to collagen IV alpha-6 chain as a novel regulator of striatal axonal branching in mice; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Genes, Brain, and Behavior (2021)
The Parkinson’s-disease-associated mutation LRRK2-G2019S alters dopaminergic differentiation dynamics via NR2F1; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Cell Reports (2021)
2020
Towards the routine use of in silico screenings for drug discovery using metabolic modelling; ;
in Biochemical Society Transactions (2020)
Pituitary Tumor Transforming Gene 1 Orchestrates Gene Regulatory Variation in Mouse Ventral Midbrain During Aging; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Frontiers in Genetics (2020)
Reduced sialylation triggers homeostatic synapse and neuronal loss in middle-aged mice; ; ; ; ; ; ; ; ; ; ;
in Neurobiology of Aging (2020)
An efficient machine learning-based approach for screening individuals at risk of hereditary haemochromatosis.; ;
in Scientific reports (2020), 10(1), 20613
Cancer Cells Employ Nuclear Caspase-8 to Overcome the p53-Dependent G2/M Checkpoint through Cleavage of USP28.; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Molecular cell (2020)
Testing informed SIR based epidemiological model for COVID-19 in Luxembourg;
E-print/Working paper (2020)
2019
Clinical update on head and neck cancer: molecular biology and ongoing challenges.; ; ; ; ; ;
in Cell Death and Disease (2019), 10(8), 540
Identification of genes under dynamic post-transcriptional regulation from time-series epigenomic data; ; ; ;
in Epigenomics (2019)
An Efficient Machine Learning Method to Solve Imbalanced Data in Metabolic Disease Prediction; ; ; ;
in Cecchini, Vania Filipa (Ed.) An Efficient Machine Learning Method to Solve Imbalanced Data in Metabolic Disease Prediction (2019)
Integrated In Vitro and In Silico Modeling Delineates the Molecular Effects of a Synbiotic Regimen on Colorectal-Cancer-Derived Cells; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Cell Reports (2019), 27
Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0.; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Nature protocols (2019), 14(3), 639-702
Impaired serine metabolism complements LRRK2-G2019S pathogenicity in PD patients; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Parkinsonism and Related Disorders (2019)
Towards the Integration of Metabolic Network Modelling and Machine Learning for the Routine Analysis of High-Throughput Patient Data; ;
in Automated Reasoning for Systems Biology and Medicine (2019)
Towards the network-based prediction of repurposed drugs using patient-specific metabolic models.; ;
in EBioMedicine (2019)
Identifying and targeting cancer-specific metabolism with network-based drug target prediction; ; ; ; ; ;
in EBioMedicine (2019), 43(May 2019), 98-106
2018
Using Regularization to Infer Cell Line Specificity in Logical Network Models of Signaling Pathways.; ;
in Frontiers in physiology (2018), 9
Systemic network analysis identifies XIAP and IkappaBalpha as potential drug targets in TRAIL resistant BRAF mutated melanoma.; ; ; ; ; ; ; ; ; ;
in NPJ systems biology and applications (2018), 4
Temporal enhancer profiling of parallel lineages identifies AHR and GLIS1 as regulators of mesenchymal multipotency; ; ; ; ; ; ; ;
in Nucleic Acids Research (2018)
The FASTCORE Family: For the Fast Reconstruction of Compact Context-Specific Metabolic Networks Models;
in Fondi, Marco (Ed.) Metabolic Network Reconstruction and Modeling (2018)
The FASTCORE Family: For the Fast Reconstruction of Compact Context-Specific Metabolic Networks Models.;
in Methods in Molecular Biology (2018), (1716), 101-110
Annexin A1 regulates EGFR activity and alters EGFR-containing tumour-derived exosomes in head and neck cancers.; ; ; ; ; ;
in European Journal of Cancer (2018), 102
Phosphoprotein patterns predict trametinib responsiveness and optimal trametinib sensitisation strategies in melanoma.; ; ; ; ; ; ; ; ; ; ; ;
in Cell death and differentiation (2018)
"Stroma-induced phenotypic plasticity offers phenotype-specific targeting to improve melanoma treatment".; ; ; ; ; ; ; ; ; ;
in Cancer letters (2018)
2017
2016
Thermodynamically constrained averaging theory for cancer growth modelling; ; ;
in IFAC-PapersOnLine (2016), 49(26), 289-294
L-plastin Ser5 phosphorylation in breast cancer cells and in vitro is mediated by RSK downstream of the ERK/MAPK pathway; ; ; ; ; ; ; ;
in FASEB Journal (2016)
Constraint based modelling going multicellular; ;
in Frontiers in Molecular Biosciences (2016), 3(3),
Benchmarking procedures for high-throughput context specific reconstruction algorithms; ;
in Frontiers in Physiology (2016)
A Probabilistic Boolean Network Approach for the Analysis of Cancer-Specific Signalling: A Case Study of Deregulated PDGF Signalling in GIST.; ; ; ;
in PloS one (2016), 11(5), 0156223
2015
Constitutive activation of oncogenic PDGFRalpha-mutant proteins occurring in GIST patients induces receptor mislocalisation and alters PDGFRalpha signalling characteristics.; ; ; ; ; ; ; ; ; ; ;
in Cell Communication and Signaling (2015), 13
Role of Calprotectin as a Modulator of the IL27-Mediated Proinflammatory Effect on Endothelial Cells; ; ; ; ; ;
in Mediators of Inflammation (2015), 2015
Cell type-selective disease-association of genes under high regulatory load; ; ; ;
in Nucleic Acids Research (2015), 43(18), 8839-8855
The oncogenic FIP1L1-PDGFRalpha fusion protein displays skewed signaling properties compared to its wild-type PDGFRalpha counterpart.; ; ; ; ; ; ; ; ; ; ;
in JAK-STAT (2015), 4(1), 1062596
The neural stem cell fate determinant TRIM32 regulates complex behavioral traits; ; ; ; ; ; ;
in Frontiers in Cellular Neuroscience (2015)
Multiscale model of dynamic neuromodulation integrating neuropeptide-induced signaling pathway activity with membrane electrophysiology.; ; ; ; ;
in Biophysical journal (2015), 108(1), 211-23
Integrated metabolic modelling reveals cell-type specific epigenetic control points of the macrophage metabolic network; ; ; ; ; ; ; ;
in BMC Genomics (2015), 16(809),
Towards improved genome-scale metabolic network reconstructions: unification, transcript specificity and beyond.; ;
in Briefings in bioinformatics (2015)
Comparative integrated omics: identification of key functionalities in microbial community-wide metabolic networks; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Biofilms and Microbiomes (2015), 1(15007),
2014
A mathematical model of metabolism and regulation provides a systems-level view of how Escherichia coli responds to oxygen; ; ; ; ; ; ; ; ; ; ;
in Frontiers in Microbiology (2014), 5(124),
ChIP-seq profiling of the active chromatin marker H3K4me3 and PPARγ, CEBPα and LXR target genes in human SGBS adipocytes; ; ; ; ;
in Genomics Data (2014), 2
Basic Regulatory Principles of Escherichia coli's Electron Transport Chain for Varying Oxygen Conditions.; ; ; ; ; ; ; ;
in PloS one (2014), 9(9), 107640
Identification of New IkappaBalpha Complexes by an Iterative Experimental and Mathematical Modeling Approach.; ; ;
in PLoS computational biology (2014), 10(3), 1003528
Combinatorial regulation of lipoprotein lipase by microRNAs during mouse adipogenesis; ; ; ; ;
in RNA Biology (2014), 11(1), 76-91
optPBN: An Optimisation Toolbox for Probabilistic Boolean Networks; ; ; ;
in PLoS ONE (2014), 9(7), 980011-15
Fast reconstruction of compact context-specific metabolic network models; ;
in PLoS Computational Biology (2014), 10(1), 1003424
2013
Integrated analysis of transcript-level regulation of metabolism reveals disease-relevant nodes of the human metabolic network; ; ; ; ;
in Nucleic Acids Research (2013)
Mathematical modelling of the Platelet-Derived Growth Factor (PDGF) signalling pathway; ; ;
in Proceedings of 4th Workshop on Computational Models for Cell Processes (CompMod'13) (2013)
A balancing act: Parameter estimation for biological models with steady-state measurements; ; ;
in Proceedings of 11th Conference on Computational Methods in Systems Biology (CMSB'13) (2013)
Recent development and biomedical applications of probabilistic Boolean networks; ; ; ; ;
in Cell Communication and Signaling (2013), 11(46),
Fast reconstruction of compact context-specific metabolic network models; ;
E-print/Working paper (2013)
Fastcore: An algorithm for fast reconstruction of context-specific metabolic network models; ;
in Proc. 8th BeNeLux Bioinformatics Conference (2013)
2012
Systems analysis of transcription factor activities in environments with stable and dynamic oxygen concentrations; ; ; ; ; ; ; ; ;
in Open Biology (2012), 2(7), 120091
Analysing the role of UVB-induced translational inhibition and PP2Ac deactivation in NF-kappaB signalling using a minimal mathematical model.; ; ; ; ;
in PLoS ONE (2012), 7(7), 40274
Probabilistic model checking of the PDGF signaling pathway; ; ; ; ;
in Transactions on Computational Systems Biology (2012), XIV
2011
A systems biology approach to analyse leaf carbohydrate metabolism in Arabidopsis thaliana.; ; ; ; ; ;
in EURASIP Journal on Bioinformatics and Systems Biology (2011), 2011(1), 2
Modeling time delay in the NFkappaB signaling pathway following low dose IL-1 stimulation.; ; ; ; ;
in EURASIP Journal on Bioinformatics and Systems Biology (2011), 2011(1), 3
A study of the PDGF signaling pathway with PRISM; ; ; ; ;
in Proceedings of the 3rd Workshop on Computational Models for Cell Processes (2011), EPTCS 67
2010
Mathematical modeling of the central carbohydrate metabolism in Arabidopsis reveals a substantial regulatory influence of vacuolar invertase on whole plant carbon metabolism.; ; ; ; ; ;
in Plant Physiology (2010), 153(1), 260-72
2009
Analysis of an apoptotic core model focused on experimental design using artificial data.; ; ; ;
in IET Systems Biology (2009), 3(4), 255-65
ON/OFF and beyond--a boolean model of apoptosis.; ; ; ; ; ; ; ;
in PLoS Computational Biology (2009), 5(12), 1000595
Mechanism of PP2A-mediated IKK beta dephosphorylation: a systems biological approach.; ; ; ; ; ;
in BMC Systems Biology (2009), 3
2008
Analyse der evolutiven Adaptation am Beispiel einer pyruvat-auxotrophen Escherichia coli-Mutante; ; ; ; ;
in Automatisierungstechnik (2008), 56
2007
Correlation between growth rates, EIIACrr phosphorylation, and intracellular cyclic AMP levels in Escherichia coli K-12.; ; ; ; ;
in Journal of Bacteriology (2007), 189(19), 6891-900
Methods for analysis of evolutive adaptation of E. coli; ; ; ; ; ;
in Proceedings of the SICE Annual Conference, September 17-20, 2007 Kagawa University, Takamatsu City, Japan (2007)
Modeling and Analysis of UVB Influence on IL-1 induced NF-kappaB Signaling; ; ; ; ;
in Proceedings of the FOSBE, September 9-12, Stuttgart, Germany (2007)
2006
A quantitative approach to catabolite repression in Escherichia coli.; ; ; ; ;
in Journal of Biological Chemistry (2006), 281(5), 2578-84
A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks.; ; ; ;
in BMC Bioinformatics (2006), 7
Sensitivity analysis of programmed cell death and implications for crosstalk phenomena during Tumor Necrosis Factor stimulation; ; ; ; ; ; ;
in Proceedings of IEEE International Conference on Control Applications (CCA), October 4-6, 2006, Technische Universität München, Germany (2006)
Modeling the VPAC2-activated cAMP/PKA signaling pathway: from receptor to circadian clock gene induction.; ; ; ;
in Biophysical Journal (2006), 90(5), 1560-71
2004
Reduction of mathematical models of signal transduction networks: simulation-based approach applied to EGF receptor signalling.; ; ; ; ;
in Systems biology (2004), 1(1), 159-69
Towards whole cell "in silico" models for cellular systems: model set-up and model validation; ; ; ; ;
in Lecture Notes in Control and Information Sciences: Proceedings of the first multidisciplinary international symposium on Positive Systems (2004)
Time hierarchies in the Escherichia coli carbohydrate uptake and metabolism.; ; ; ;
in Bio Systems (2004), 73(1), 57-71
A benchmark for methods in reverse engineering and model discrimination: problem formulation and solutions.; ; ; ; ; ; ;
in Genome Research (2004), 14(9), 1773-85
Modeling and experimental validation of the signal transduction via the Escherichia coli sucrose phospho transferase system.;
in Journal of Biotechnology (2004), 110(2), 181-99
2003
An approach for dividing models of biological reaction networks into functional units; ; ; ;
in Simulation (2003), 79
2001
Biosystems Engineering: Applying methods from systems theory to biological systems; ; ; ; ;
in Proceedings of the 2nd International Conference on Systems Biology 4.-7.11.2001, Pasadena (2001)
| URL: https://wwwen.uni.lu/research/fstm/dlsm/people/thomas_sauter | Date: Wednesday, 06 July 2022, 18:27 |