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Dr. Alexander Skupin
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| Faculty or Centre | Luxembourg Centre for Systems Biomedicine | ||||
| Department | Integrative Cell Signalling | ||||
| Postal Address |
Université du Luxembourg 6, avenue du Swing L-4367 Belvaux |
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| Campus Office | BioTech II, 2.15 | ||||
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| Telephone | (+352) 46 66 44 5268 | ||||
2022
Single-cell transcriptional profiling and gene regulatory network modeling in Tg2576 mice reveal gender-dependent molecular features preceding Alzheimer-like pathologies; ; ; ; ; ; ; ; ;
in Molecular Neurobiology (2022), in press (doi:10.1007/s12035-022-02985-2)(in press),
Stress hormone signalling inhibits Th1 polarization in a CD4 T-cell-intrinsic manner via mTORC1 and the circadian gene PER1; ; ; ; ; ; ; ;
in Immunology (2022), 165(4), 428--444
Combinatorial analysis reveals highly coordinated early-stage immune reactions that predict later antiviral immunity in mild COVID-19 patients; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Cell Reports Medicine (2022), 3(4), 100600
A CutFEM Method for a Mechanistic Modelling of Astrocytic Metabolism in 3D Physiological Morphologies; ; ; ;
Scientific Conference (2022, June 07)
3D Modelling of a Spatially Resolved Energy Metabolism in Physiological Astrocytic Morphology; ; ; ; ; ;
Scientific Conference (2022)
Microglia phenotypes are associated with subregional patterns of concomitant tau, amyloid-β and α-synuclein pathologies in the hippocampus of patients with Alzheimer’s disease and dementia with Lewy bodies; ; ; ; ; ; ; ; ; ;
in Acta Neuropathologica Communications (2022), 10(1), 36
Morphological principles of neuronal mitochondria; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Journal of Comparative Neurology (2022), 530(6), 886--902
Single-cell transcriptomics of human iPSC differentiation dynamics reveal a core molecular network of Parkinson’s disease; ; ; ; ; ; ;
in Communications Biology (2022), 5(1), 1--19
Model-based assessment of COVID-19 epidemic dynamics by wastewater analysis; ; ; ; ; ; ;
in Science of the Total Environment (2022), 827
Buffering variability in cell regulation motifs close to criticality; ; ;
in Physical Review. E. (2022)
Midbrain organoids mimic early embryonic neurodevelopment and recapitulate LRRK2-p.Gly2019Ser-associated gene expression; ; ; ; ; ; ; ;
in American Journal of Human Genetics (2022)
2021
PRAQA: Protein Relative Abundance Quantification Algorithm for 3D Fluorescent Images.; ; ;
in BIOIMAGING (2021)
The Contribution of Microglia to Neuroinflammation in Parkinson's Disease.; ; ; ;
in International journal of molecular sciences (2021), 22(9),
A new brain organoid model to study Parkinson’s Disease; ; ; ; ; ; ; ;
in Biomedical Science and Engineering (2021)
COVID-19 Crisis Management in Luxembourg: Insights from an Epidemionomic Approach; ; ; ; ; ; ; ; ; ; ;
in Economics and Human Biology (2021), 43
The benefits, costs and feasibility of a low incidence COVID-19 strategy; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in The Lancet Regional Health - Europe (2021), 12(100193),
A cut finite element method for spatially resolved energy metabolism models in complex neuro-cell morphologies with minimal remeshing; ; ; ;
in Advanced Modeling and Simulation in Engineering Sciences (2021), 8
Single‑nuclei chromatin profiling of ventral midbrain reveals cell identity transcription factors and cell‑type‑specific gene regulatory variation; ; ; ; ; ; ; ;
in Epigenetics and Chromatin (2021)
Modelling COVID-19 dynamics and potential for herd immunity by vaccination in Austria, Luxembourg and Sweden; ; ; ; ; ; ; ; ;
in Journal of Theoretical Biology (2021)
Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Nature Microbiology (2021), 6(1), 123--135
Dynamical SPQEIR model assesses the effectiveness of non-pharmaceutical interventions against COVID-19 epidemic outbreaks.; ; ; ; ; ; ; ; ;
in PloS one (2021), 16(5), 0252019
Single-Cell Transcriptomics and In Situ Morphological Analyses Reveal Microglia Heterogeneity Across the Nigrostriatal Pathway; ; ; ; ; ; ; ; ;
in Frontiers in Immunology (2021)
The Parkinson’s-disease-associated mutation LRRK2-G2019S alters dopaminergic differentiation dynamics via NR2F1; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Cell Reports (2021)
SARS-CoV-2 transmission risk from asymptomatic carriers: Results from a mass screening programme in Luxembourg; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in The Lancet Regional Health. Europe (2021), 4
2020
Patient-derived organoids and orthotopic xenografts of primary and recurrent gliomas represent relevant patient avatars for precision oncology.; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Acta Neuropathologica (2020)
Primary and recurrent glioma patient-derived orthotopic xenografts (PDOX) represent relevant patient avatars for precision medicine; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
E-print/Working paper (2020)
ROS networks: designs, aging, Parkinson's disease and precision therapies.; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in NPJ Systems Biology and Applications (2020)
Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Nature Microbiology (2020)
A Statistical View on Calcium Oscillations.; ; ; ; ;
in Advances in experimental medicine and biology (2020), 1131
Assessing suppression strategies against epidemicoutbreaks like COVID-19: the SPQEIR model; ; ; ; ; ; ; ; ;
E-print/Working paper (2020)
Single-cell transcriptomics reveals multiple neuronal cell types in human midbrain-specific organoids; ; ; ; ; ; ; ; ; ;
in Cell and Tissue Research (2020)
L-Isoaspartyl methyltransferase deficiency in zebrafish leads to impaired calcium signaling in the brain; ; ; ; ; ; ; ; ;
in Frontiers in Genetics (2020)
New insights into the early mechanisms of epileptogenesis in a zebrafish model of Dravet syndrome; ; ; ; ; ; ; ; ; ; ;
in Epilepsia (2020)
2019
From Diagnosing Diseases to Predicting Diseases; ; ; ; ;
in Betz, Ulrich A.K. (Ed.) Curious2018 (2019)
Stem cell-associated heterogeneity in Glioblastoma results from intrinsic tumor plasticity shaped by the microenvironment; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Nature communications (2019), 10(1), 1787
Mitochondrial morphology provides a mechanism for energy buffering at synapses; ; ; ; ; ; ;
E-print/Working paper (2019)
Mitochondrial morphology provides a mechanism for energy buffering at synapses.; ; ; ; ; ; ;
in Scientific reports (2019), 9
Mutations in RHOT1 disrupt ER-mitochondria contact sites interfering with calcium homeostasis and mitochondrial dynamics in Parkinson's disease.; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Antioxidants & redox signaling (2019)
Data-driven multiscale modeling reveals the role of metabolic coupling for the spatio-temporal growth dynamics of yeast colonies.; ; ; ; ; ; ;
in BMC molecular and cell biology (2019), 20
Single-cell transcriptomics reveals multiple neuronal cell types in human midbrain-specific organoids; ; ; ; ; ; ;
E-print/Working paper (2019)
Neural Stem Cells of Parkinson's Disease Patients Exhibit Aberrant Mitochondrial Morphology and Functionality; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Stem Cell Reports (2019)
2018
On the phase space structure of IP3 induced Ca2+ signalling and concepts for predictive modeling; ; ; ;
in Chaos (2018), 28(4), 045115
Loss of inter-cellular cooperation by complete epithelial-mesenchymal transition supports favorable outcomes in basal breast cancer patients; ; ; ; ; ; ; ;
in Oncotarget (2018), 9(28), 20018
Data-driven dynamical model indicates that the heat shock response in Chlamydomonas reinhardtii is tailored to handle natural temperature variation; ; ;
in Journal of the Royal Society, Interface (2018), 15(142), 20170965
Single-cell transcriptomics reveals distinct inflammation-induced microglia signatures; ; ; ; ; ; ; ; ; ; ; ;
in EMBO Reports (2018)
2017
Analysis of mitochondrial metabolism in situ: Combining stable isotope labeling with selective permeabilization; ; ; ; ; ; ; ;
in Metabolic Engineering (2017)
How to address cellular heterogeneity by distribution biology;
in Current Opinion in Systems Biology (2017), 3
Inhibition of the mitochondrial calcium uniporter rescues dopaminergic neurons in pink1-/- zebrafish; ; ; ; ; ; ; ; ;
in European Journal of Neuroscience (2017), 45(4), 528
2016
Loss of DJ-1 impairs antioxidant response by altered glutamine and serine metabolism; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ;
in Neurobiology of Disease (2016), 89
Cell Fate Decision as High-Dimensional Critical State Transition; ; ; ; ; ; ; ;
in PLoS Biology (2016), 14(12), 2000640
Neurological Diseases from a Systems Medicine Point of View.; ;
in Methods in Molecular Biology (2016), 1386
2015
Stemness of the hybrid Epithelial/Mesenchymal State in Breast Cancer and Its Association with Poor Survival.; ; ; ; ; ; ; ;
in PLoS ONE (2015), 10(5), 0126522
Protocols and programs for high-throughput growth and aging phenotyping in yeast.; ; ; ;
in PloS one (2015), 10(3), 0119807
Multiscale Modeling Indicates That Temperature Dependent [Ca2+]i Spiking in Astrocytes Is Quantitatively Consistent with Modulated SERCA Activity; ; ;
in Neural Plasticity (2015), Volume 2015
Pro-inflammatory macrophages sustain pyruvate oxidation through pyruvate dehydrogenase for the synthesis of itaconate and to enable cytokine expression; ; ; ; ; ; ;
in Journal of Biological Chemistry (2015)
Improved Parkinson’s disease classification from diffusion MRI data by Fisher vector descriptors; ; ; ;
in Improved Parkinson’s disease classification from diffusion MRI data by Fisher vector descriptors (2015, October)
Critical transitions in chronic disease: transferring concepts from ecology to systems medicine; ; ; ;
in Current Opinion in Biotechnology (2015), 34
2014
Mesoscopic behavior from microscopic Markov dynamics and its application to calcium release channels.; ; ; ; ;
in Journal of Theoretical Biology (2014), 343
Describing the complexity of systems: multivariable "set complexity" and the information basis of systems biology.; ; ;
in Journal of Computational Biology (2014), 21(2), 118-40
Unidirectional P-body transport during the yeast cell cycle.; ; ; ; ; ; ; ; ;
in PloS one (2014), 9(6), 99428
Discovering pair-wise genetic interactions: an information theory-based approach.; ; ;
in PloS one (2014), 9(3), 92310
ROS homeostasis in a dynamic model: How to save PD neuron?; ; ; ; ; ; ; ; ; ; ; ;
Poster (2014, December)
Automated nuclei clump splitting by combining local concavity orientation and graph partitioning; ; ;
in International Conference on Biomedical and Health Informatics (2014)
Reliable encoding of stimulus intensities within random sequences of intracellular Ca2+ spikes.; ; ; ; ; ; ; ;
in Science Signaling (2014), 7(331), 59
2013
Aneuploidy underlies a multicellular phenotypic switch.; ; ; ; ; ; ; ;
in Proceedings of the National Academy of Sciences of the United States of America (2013), 110(30), 12367-72
2012
New methods for finding associations in large data sets: Generalizing the maximal information coefficient (MIC); ; ;
in Proceedings of the Ninth International Workshop on Computational Systems Biology (2012)
Calcium signaling: from single channels to pathways;
in Advances in Experimental Medicine and Biology (2012), 740
Fundamentalproperties of Ca2+ signals; ; ;
in Biochimica et Biophysica Acta - General Subjects (2012), 1820(8), 1185-94
2011
Thermodynamic Characterisation of Carbohydrate-Active Enzymes; ; ; ;
in Experimental Standard Conditions of Enzyme Characterisation, Ruedesheim 12-16 2011 (2011)
Carbohydrate-active enzymes exemplify entropic principles in metabolism; ; ;
in Molecular Systems Biology (2011), 7(542),
2010
Statistical Analysis of Calcium Oscillations;
in European Physical Journal. Special Topics (2010), 187
2009
From puffs to global Ca2+ signals: how molecular properties shape global signals.;
in Chaos (2009), 19(3), 037111
Clustering of InsP3 receptors by InsP3 retunes their regulation by InsP3 and Ca2+.; ; ;
in Nature (2009), 458(7238), 655-9
2008
Temperature and nitric oxide control spontaneous calcium transients in astrocytes.; ; ; ; ;
in Cell calcium (2008), 43(3), 285-95
The role of IP3R clustering in Ca2+ signaling.;
in Genome informatics. International Conference on Genome Informatics (2008), 20
How does intracellular Ca2+ oscillate: by chance or by the clock?; ; ; ; ; ; ;
in Biophysical journal (2008), 94(6), 2404-11
2007
Statistical properties and information content of calcium oscillations.;
in Genome informatics. International Conference on Genome Informatics (2007), 18
