A5013570173- Micro and Nano Robotics
- Protist diversity and phylogeny
- Protein Structure and Dynamics
- Alzheimer's disease research and treatments
- Molecular Communication and Nanonetworks
- Advanced Materials and Mechanics
- Genetics, Aging, and Longevity in Model Organisms
- COVID-19 epidemiological studies
- Microbial Metabolic Engineering and Bioproduction
- Cell Image Analysis Techniques
- Parkinson's Disease Mechanisms and Treatments
- 3D Printing in Biomedical Research
- Orbital Angular Momentum in Optics
- Biocrusts and Microbial Ecology
- Bacterial biofilms and quorum sensing
- Microtubule and mitosis dynamics
- Mathematical and Theoretical Epidemiology and Ecology Models
- Cellular Mechanics and Interactions
- Gene Regulatory Network Analysis
- COVID-19 Pandemic Impacts
- Nerve injury and regeneration
- Algal biology and biofuel production
- Neural dynamics and brain function
- Pancreatic function and diabetes
- Mathematical Biology Tumor Growth
University of Copenhagen
2009-2025
University of Cambridge
2014-2021
University of Oxford
2016
Significance Alzheimer's disease and several related disorders are associated with the assembly of specific proteins into ordered fibrillar aggregates. In disease, key component pathological aggregates, Aβ peptide, is produced from a precursor protein in variable lengths: Aβ40 more abundant Aβ42 aggregation-prone. To shed light on molecular basis progression, aggregation process has been studied vitro. New theoretical models allow us to relate kinetic measurements rates individual processes...
Significance Parkinson’s disease is characterized by the presence in brain tissues of aberrant aggregates primarily formed protein α-synuclein. It has been difficult, however, to identify compounds capable preventing formation such deposits because complexity aggregation process By exploiting recently developed highly quantitative vitro assays, we a compound, squalamine, that blocks α-synuclein aggregation, and characterize its mode action. Our results show competing with for binding lipid...
The aggregation of α-synuclein, an intrinsically disordered protein that is highly abundant in neurons, closely associated with the onset and progression Parkinson's disease. We have shown previously aminosterol squalamine can inhibit lipid induced initiation process we report here related compound trodusquemine capable inhibiting not only this but also fibril-dependent secondary pathways reaction. further demonstrate effectively suppress toxicity α-synuclein oligomers neuronal cells, its...
A growing spectrum of applications for natural and synthetic polymers, whether in industry or biomedical research, demands fast universally applicable tools to determine the mechanical properties very diverse polymers. To date, determining these is privilege a limited circle biophysicists engineers with appropriate technical skills.Easyworm user-friendly software suite coded MATLAB that simplifies image analysis individual polymeric chains extraction chains. Easyworm contains comprehensive...
Bacteria in biofilms are embedded extracellular matrix and display low metabolic activity, partly due to insufficient diffusive exchange of substrate. The activity both contribute the high antibiotic tolerance-the hallmark biofilm bacteria. second messenger molecule, c-di-GMP, regulates development Pseudomonas aeruginosa, where internal levels lead formation associated with planktonic Using a microcalorimetric approach, we show that c-di-GMP signaling is major determinant P. culture two...
We illuminate the nature of three-dimensional random walks microorganisms composed individual organisms adhered together. Such $aggregate~random~walkers$ are typified by choanoflagellates, eukaryotes that closest living relatives animals. In colony-forming species $Salpingoeca~rosetta$ we show beating each flagellum is stochastic and uncorrelated with others, vectorial sum flagellar propulsion manifests as helical swimming. A quantitative theory for these results presented variability discussed.
Spatial information from cell-surface receptors is crucial for processes that require signal processing and sensing of the environment. Here, we investigate optimal placement such through a theoretical model minimizes uncertainty in gradient estimation. Without requiring priori knowledge physical limits or biochemical processes, reproduce emergence clusters closely resemble those observed real cells. On perfect spherical surfaces, optimally placed spread uniformly. When perturbations break...
Biological systems are characterized by compartmentalization from the subcellular to tissue level, and thus reactions in small volumes ubiquitous living systems. Under such conditions, statistical number fluctuations, which commonly negligible bulk reactions, can become dominant lead stochastic behavior. We present here a model of protein filament formation volumes. show that two principal regimes emerge for system behavior, fluctuation regime close behavior large single rare events. Our...
Efficient uptake of prey and nutrients from the environment is an important component in fitness all microorganisms, its dependence on size may reveal clues to origins evolutionary transitions multicellularity. Because potential benefits rates must be viewed context other costs size, such as varying predation increased metabolic associated with larger more complex body plans, rate itself not necessarily that which optimized by evolution. Uptake can strongly dependent local organism geometry...
Variability is emerging as an integral part of development. It therefore imperative to ask how access the information contained in this variability. Yet most studies development average their observations and, discarding variability, seek derive models, biological or physical, that explain these observations. Here, we analyse variability a study cell sheet folding green alga Volvox, whose spherical embryos turn themselves inside out process sharing invagination, expansion, involution, and...
As the closest unicellular relatives of animals, choanoflagellates serve as useful model organisms for understanding evolution animal multicellularity. An important factor in was increasing ocean oxygen levels Precambrian, which are thought to have influenced emergence complex multicellular life. a first step addressing these conditions, we study here response colony-forming choanoflagellate Salpingoeca rosetta gradients. Using microfluidic device that allows spatio-temporal variations...
Abstract Computer-aided analysis of biological microscopy data has seen a massive improvement with the utilization general-purpose deep learning techniques. Yet, in studies multi-organism systems, problem collision and overlap remains challenging. This is particularly true for systems composed slender bodies such as swimming nematodes, spermatozoa, or beating eukaryotic prokaryotic flagella. Here, we develop end-to-end approach to extract precise shape trajectories generally motile...
The aggregation of α-synuclein is a hallmark Parkinson's disease (PD) and variety related neurological disorders. A number mutations in this protein, including A30P A53T, are associated with familial forms the disease. Patients carrying mutation typically exhibit similar age onset symptoms as sporadic PD, while those A53T generally have an earlier accelerated progression. We report two C. elegans models PD (PDA30P PDA53T), which express these mutational variants muscle cells, probed their...
Clinicians and researchers utilize subjective, clinical classification systems to stratify lower extremity ulcer infections for treatment research. The purpose of this study was examine whether these classifications are reflected in the ulcer's transcriptome. RNA sequencing (RNA-seq) performed on biopsies from clinically infected ulcers (n = 44). Resulting sequences were aligned host reference genome create a transcriptome profile. Differential gene expression analysis ontology (GO)...
To evaluate the potential for developing a quality index Danish modified atmosphere packaged (MAP) heat-processed and naturally contaminated pork meat product stored at 5 degrees C.The composition of predominating microflora changes in contents tyramine, arginine, organic acids sensory characteristics were analysed. The was predominated by Lactobacillus sakei, Leuconostoc carnosum Carnobacterium divergens. presence each species varied between products batches resulting limited usefulness...
Network flows often exhibit a hierarchical treelike structure that can be attributed to the minimization of dissipation. The common feature such systems is single source and multiple sinks (or vice versa). In contrast, here we study networks with only sink. These arise from secondary purposes networks, as blood sugar regulation through insulin production. Minimization dissipation in these leads vascular shunting, vessel connecting inlet outlet. We show instead how optimizing transport time...
Here, we present a protocol for assessing metabolic activity of bacterial populations by measuring heat flow using isothermal calorimetry. We outline the steps preparing different growth models Pseudomonas aeruginosa and performing continuous measurements in calScreener. detail simple principal component analysis to differentiate between states probabilistic logistic classification assess resemblance wild-type bacteria. This fine-scale measurement can aid understanding microbial physiology....
The quantification of spreading heterogeneity in the COVID-19 epidemic is crucial as it affects choice efficient mitigating strategies irrespective whether its origin biological or social. We present a method to deduce temporal and individual variations basic reproduction number directly from trajectories at community level. Using data 98 districts Denmark we estimate an overdispersion factor k for be about 0.11 (95% confidence interval 0.08-0.18), implying that 10 % infected cause between...
We investigate the boundary between chemotaxis driven by spatial estimation of gradients and temporal estimation. While it is well known that becomes disadvantageous for small organisms at high noise levels, unclear whether there a discontinuous switch optimal strategies or continuous transition exists. Here, we employ deep reinforcement learning to study possible integration information in an priori unconstrained manner. parameterize such combined chemotactic policy recurrent neural network...
Instance segmentation is the task of assigning unique identifiers to individual objects in images. Solving this requires breaking inherent symmetry that semantically similar must result distinct outputs. Deep learning algorithms bypass break-of-symmetry by training specialized predictors or utilizing intermediate label representations. However, many these approaches break down when faced with overlapping labels are ubiquitous biomedical imaging, for instance segmenting cell layers. Here, we...
The quantification of spreading heterogeneity in the COVID-19 epidemic is crucial as it affects choice efficient mitigating strategies irrespective whether its origin biological or social. We present a method to deduce temporal and individual variations basic reproduction number R directly from trajectories at community level. Using data 98 districts Denmark we estimate an overdispersion factor k for be about 0.11 (95% confidence interval 0.08 – 0.18), implying that 10 % infected cause...