A5011456534- Advanced biosensing and bioanalysis techniques
- Advanced Proteomics Techniques and Applications
- Neuroscience and Neural Engineering
- Biochemical and Structural Characterization
- Microbial Metabolic Engineering and Bioproduction
- Liver physiology and pathology
- Click Chemistry and Applications
- Botulinum Toxin and Related Neurological Disorders
- Liver Disease Diagnosis and Treatment
- Molecular Communication and Nanonetworks
- Gene Regulatory Network Analysis
- Ubiquitin and proteasome pathways
- Viral Infectious Diseases and Gene Expression in Insects
- CRISPR and Genetic Engineering
- Single-cell and spatial transcriptomics
- Anodic Oxide Films and Nanostructures
- Monoclonal and Polyclonal Antibodies Research
- Bioinformatics and Genomic Networks
- Biotin and Related Studies
- Polymer Surface Interaction Studies
- Advanced Biosensing Techniques and Applications
- Advanced Materials and Mechanics
- Neurological disorders and treatments
- Hepatocellular Carcinoma Treatment and Prognosis
- Organ Transplantation Techniques and Outcomes
University of Freiburg
2018-2025
University of Arizona
1984
Reproducibility and reusability of the results data-based modeling studies are essential. Yet, there has been—so far—no broadly supported format for specification parameter estimation problems in systems biology. Here, we introduce PEtab, a which facilitates using Systems Biology Markup Language (SBML) models set tab-separated value files describing observation model experimental data as well parameters to be estimated. We already implemented PEtab support into eight well-established...
Chronic liver diseases are worldwide on the rise. Due to rapidly increasing incidence, in particular Western countries, metabolic dysfunction-associated steatotic disease (MASLD) is gaining importance as can develop into hepatocellular carcinoma. Lipid accumulation hepatocytes has been identified characteristic structural change MASLD development, but molecular mechanisms responsible for progression remained unresolved. Here, we uncover primary from a preclinical model fed with diet (WD) an...
Synthetic biology applies concepts from electrical engineering and information processing to endow cells with computational functionality. Transferring the underlying molecular components into materials wiring them according topologies inspired by electronic circuit boards has yielded systems that perform selected operations. However, limited functionality of available building blocks is restricting implementation advanced information-processing circuits materials. Here, a set protease-based...
Abstract Feedforward and feedback loops are key regulatory elements in cellular signaling information processing. Synthetic biology exploits these for the design of molecular circuits that enable reprogramming control specific functions. These serve as a basis engineering complex networks, opening door numerous medical biotechnological applications. Here, similar principle is applied. positive incorporated into biohybrid polymer materials order to develop signal‐sensing signal‐processing...
Targeted therapies have shown striking success in the treatment of cancer over last years. However, their specific effects on an individual tumor appear to be varying and difficult predict. Using integrative modeling approach that combines mechanistic regression modeling, we gained insights into response mechanisms breast cells due different ligand–drug combinations. The multi-pathway model, capturing ERBB receptor signaling as well downstream MAPK PI3K pathways was calibrated time-resolved...
Biological systems are frequently analyzed by means of mechanistic mathematical models. In order to infer model parameters and provide a useful that can be employed for understanding hypothesis testing, the is often calibrated on quantitative, time-resolved data. To do so, it typically important compare experimental measurements over broad time ranges various conditions, e.g. perturbations biological system. However, most established techniques such as Western blot, or quantitative real-time...
Information-Processing Materials Biohybrid materials that communicate with each other via diffusible inhibitory or activating signals are assembled in a circuit topology inspired by an electronical binary 2-input/4-output decoder. The biomolecular decoder is programmed to convert specific molecular inputs into the release of distinct protease outputs. Such information-processing biohybrid material circuits can be used for computing and sensor signal processing. More details found article...
Abstract The functional integration of biological switches with synthetic building blocks enables the design modular, stimulus-responsive biohybrid materials. By connecting individual modules via diffusible signals, information-processing circuits can be designed. Such systems are, however, mostly limited to respond either small molecules, proteins, or optical input thus limiting sensing and application scope material circuits. Here, we a highly modular based on CRISPR-Cas13a translate...
Abstract The functional integration of biological switches with synthetic building blocks enables the design modular, stimulus‐responsive biohybrid materials. By connecting individual modules via diffusible signals, information‐processing circuits can be designed. Such systems are, however, mostly limited to respond either small molecules, proteins, or optical input thus limiting sensing and application scope material circuits. Here, a highly modular is based on CRISPR/Cas13a translate...
Abstract The site-specific and covalent conjugation of proteins on solid supports in hydrogels is the basis for synthesis biohybrid materials offering broad applications. Current methods conjugating to desired targets are often challenging due unspecific binding, unstable (non-covalent) coupling, or expensive difficult-to-synthesize ligand molecules. Here, we present PenTag, an approach biorthogonal, highly-specific a protein its various applications sciences. We engineered penicillin-...
Abstract The site‐specific and covalent conjugation of proteins on solid supports in hydrogels is the basis for synthesis biohybrid materials offering broad applications. Current methods conjugating to desired targets are often challenging due unspecific binding, unstable (noncovalent) coupling, or expensive difficult‐to‐synthesize ligand molecules. Here, presented PenTag, an approach bioorthogonal, highly specific, a protein its various applications sciences. Penicillin‐binding 3 (PBP3)...
Abstract Biological systems are frequently analyzed by means of mechanistic mathematical models. In order to infer model parameters and provide a useful that can be employed for understanding hypothesis testing, the is often calibrated on quantitative, time-resolved data. To do so, it typically important compare experimental measurements over broad time ranges various conditions, e.g. perturbations biological system. However, most established techniques such as Western blot, or quantitative...
Abstract Chronic liver diseases are worldwide on the rise. Due to rapidly increasing incidence, in particular Western countries, Non-alcoholic fatty disease (NAFLD) is gaining importance as can develop into hepatocellular carcinoma. Lipid accumulation hepatocytes has been identified characteristic structural change NAFLD development, but molecular mechanisms responsible for progression remained unresolved. Here, we uncover primary from a preclinical model fed with diet (WD) strong...
Abstract Synthetic biology applies concepts from electrical engineering and information processing to endow cells with computational functionality. Transferring the underlying molecular components into materials wiring them according topologies inspired by electronic circuit boards has yielded systems that perform selected operations. However, limited functionality of available building blocks is restricting implementation advanced information-processing circuits materials. Here, we engineer...
Introduction ERBB family of receptors tirosine kinases (RTK) are potent drivers tumorogenesis and metastasis. In breast tumours, 70%–80% patients, although clinically not classified as HER2 positive, show low or moderate expression along with EGFR ERBB3. Concomitant blockade specific monoclonal antibodies based on proteomic profile determined by Reverse Phase Protein Array (RPPA), appears a beneficial approach to improve treatment strategies. Material methods Cancer cells lines from...
In article number 1801320, Wilfried Weber and co-workers present the incorporation of biological circuits into polymer materials capable sensing processing an input stimulus producing a quantitative output. Positive feedback and/or feedforward network topologies detect proteolytic activity botulinum toxin A with adjustable kinetics dynamic range. Image credit: Jo Richers (www.jorichers.com).