Alexander Skupin

Circulating immune profiling reveals impaired monocyte states and trajectories driving immunosuppression in glioblastoma

The paper identifies impaired monocyte states and trajectories in glioblastoma patients through immune profiling, revealing systemic immune reprogramming and potential therapeutic targets.

ZFHX4 is necessary for dopaminergic neuron differentiation and controls cell cycle by regulating LIN28A

This study identifies ZFHX4 as a key regulator of midbrain dopaminergic neuron differentiation by controlling cell cycle progression through the LIN28A-miR-9 axis.

MONFIT: Multi-omics factorization-based integration of time-series data sheds light on Parkinson's disease

MONFIT integrates time-series single-cell RNA-sequencing with bulk proteomics and metabolomics to identify PD-associated genes and pathways.

Machine Learning-based Predictions of Spatial Metabolic Profiles Demonstrate the Impact of Morphology on Astrocytic Energy Metabolism

This paper introduces a machine learning framework to predict spatial metabolic profiles in astrocytes and shows that uniform mitochondrial distribution improves cell health.

Multi-omics integration of scRNA-seq time series data predicts new intervention points for Parkinson's disease

The paper integrates scRNA-seq time series data with molecular networks to identify PD-related genes and potential drug targets.

Systematic analysis and optimization of early warning signals for critical transitions

This paper systematically analyzes and optimizes early warning signals for critical transitions using mathematical frameworks and empirical data.

Mechanistic multiscale modelling of energy metabolism in human astrocytes indicates morphological effects in Alzheimer's Disease

The paper develops a multiscale metabolic model of human astrocytes to show how morphological changes in Alzheimer's Disease affect their metabolic function and support capacity.

Concomitant AD and DLB pathologies shape subfield microglia responses in the hippocampus

This study examines how Alzheimer's and Dementia with Lewy Bodies pathologies influence microglia responses in hippocampal subfields, finding distinct patterns in disease severity and microglial morphology.

Morphological principles of neuronal mitochondria

The paper analyzes mitochondrial morphology in mouse cerebellum neurons using 3D TEM data to quantify structural features that influence metabolic output.

Single nuclei chromatin profiling of ventral midbrain reveals cell identity transcription factors and cell type-specific gene regulatory variation

The paper profiles chromatin accessibility in ventral midbrain single nuclei from two mouse strains, identifies cell types and transcription factors, and finds regulatory variation specific to cell types.

Neuronal hyperactivity in a LRRK2-G2019S cellular model of Parkinson's Disease

This study investigates neuronal activity in LRRK2-G2019S mutant neurons and finds increased spontaneous calcium transients and shorter inter-spike intervals.

Single-cell transcriptomics reveals multiple neuronal cell types in human midbrain-specific organoids

The paper uses single-cell RNA-sequencing to identify multiple neuronal cell types in human midbrain organoids, including dopaminergic, GABAergic, and glutamatergic neurons.

Data-driven multiscale modeling reveals the role of metabolic coupling for the spatio-temporal growth dynamics of yeast colonies

The paper develops a data-driven spatial model to study yeast colony growth dynamics, showing that metabolic coupling is central to colony formation.

Design principles of ROS dynamic networks relevant to precision therapies for age-related diseases

The paper models the ROS regulatory network to show how its dysfunction contributes to age-related diseases like Parkinson's and suggests potential therapeutic interventions.

MIC-MAC: High-throughput analysis of three-dimensional microglia morphology in mammalian brains

The paper develops a method to analyze 3D microglia morphology in mammalian brains using imaging, revealing species- and disease-specific morphological differences in mouse and human samples.

Dynamical modelling of the heat shock response in Chlamydomonas reinhardtii

The paper develops a dynamical model of the heat shock response in Chlamydomonas reinhardtii to study adaptation to prolonged heat stress and temperature changes.