A5023380445- Single-cell and spatial transcriptomics
- Botulinum Toxin and Related Neurological Disorders
- Acute Ischemic Stroke Management
- Cancer Genomics and Diagnostics
- Parkinson's Disease Mechanisms and Treatments
- Cerebral Palsy and Movement Disorders
- Stroke Rehabilitation and Recovery
- Muscle activation and electromyography studies
- Muscle Physiology and Disorders
- Neurogenetic and Muscular Disorders Research
- Virus-based gene therapy research
- Immune cells in cancer
- Gene expression and cancer classification
- BRCA gene mutations in cancer
- Molecular Biology Techniques and Applications
- Traumatic Brain Injury and Neurovascular Disturbances
- Diabetic Foot Ulcer Assessment and Management
- Neurological Disorders and Treatments
- Cardiomyopathy and Myosin Studies
- DNA and Biological Computing
- Animal Virus Infections Studies
- Barrier Structure and Function Studies
- Chromosomal and Genetic Variations
- RNA modifications and cancer
- Advanced Neuroimaging Techniques and Applications
University of Bern
2023-2024
Eötvös Loránd University
2020-2022
University of Basel
2021
Abstract The consensus molecular subtypes (CMS) of colorectal cancer (CRC) is the most widely-used gene expression-based classification and has contributed to a better understanding disease heterogeneity prognosis. Nevertheless, CMS intratumoral restricts its clinical application, stressing necessity further characterizing composition architecture CRC. Here, we used Spatial Transcriptomics (ST) in combination with single-cell RNA sequencing (scRNA-seq) decipher spatially resolved cellular In...
Approved vaccines are effective against severe COVID-19, but broader immunity is needed new variants and transmission. Therefore, we developed genome-modified live-attenuated (LAV) by recoding the SARS-CoV-2 genome, including 'one-to-stop' (OTS) codons, disabling Nsp1 translational repression removing ORF6, 7ab 8 to boost host immune responses, as well spike polybasic cleavage site optimize safety profile. The resulting OTS-modified LAVs, designated OTS-206 OTS-228, genetically stable can be...
Spatial transcriptomics technologies currently lack scalable and cost-effective options to profile tissues in three dimensions. Technological advances microcomputed tomography enabled non-destructive volumetric imaging of tissue blocks with sub-micron resolution at a centimetre scale. Here, we present X-Pression, deep convolutional neural network-based framework designed reconstruct 3D expression signatures cellular niches from data. By training on singular 2D section paired spatial...
Breast cancer remains one of the prominent causes death worldwide. Although chemotherapeutic agents often result in substantial reduction primary or metastatic tumours, remaining drug-tolerant tumour cell populations, known as minimal residual disease (MRD), pose a significant risk recurrence and therapy resistance. In this study, we describe spatiotemporal organisation response MRD BRCA1;p53-deficient mouse mammary tumours human clinical samples using multimodal approach. By integrating...
Abstract The heterogeneity of colorectal cancer (CRC) contributes to substantial differences in patient response standard therapies. consensus molecular subtypes (CMS) CRC is the most widely-used gene expression-based classification and has contributed a better understanding disease prognosis. Nevertheless, CMS intratumoral restricts its clinical application, stressing necessity further characterizing composition architecture CRC. Here, we used Spatial Transcriptomics (ST) combination with...
Acute ischemic stroke treatment faces an unresolved obstacle as capillary reperfusion remains insufficient after thrombolysis and thrombectomy causing neuronal damage poor prognosis.Hypoxia-induced constriction is mediated by actomyosin contraction in precapillary smooth muscle cells (SMCs) therefore myosin-2 could be ideal target with potentially high impact on of capillaries.Methods: The inhibitor para-aminoblebbistatin (AmBleb) was tested isolated human rat arterioles to assess the effect...
The rate of chemical reactions increases proportionally with temperature, but the interplay biochemical permits deviations from this relation and adaptation. degradation individual mRNAs in yeast increased to varying degrees temperature. We examined how these variations are influenced by translation codon composition mRNAs. developed a method that revealed existence neutral half-life above which stabilized below they destabilized. proportion two mRNA subpopulations remained relatively...
Dissecting tissue compartments in spatial transcriptomics (ST) remains challenging due to limited resolution and dependence on single-cell reference data. We present Chrysalis, a computational method that rapidly uncovers through spatially variable gene (SVG) detection archetypal analysis without requiring external Additionally, it offers unique visualisation approach for swift characterisation provides access the underlying expression signatures, enabling identification of functionally...
Abstract Dissecting tissue compartments in spatial transcriptomics (ST) remains challenging due to limited resolution and dependence on single-cell reference data. We present Chrysalis, a novel method rapidly detect through spatially variable gene (SVG) detection archetypal analysis without external references. applied Chrysalis ST datasets originating from various species, tissues technologies demonstrated state-of-the-art performance identifying cellular niches.
Abstract Although various effective anti-cancer treatments have become available over the last decades, resistance to all therapies remains major cause of death cancer patients with disseminated tumors. Striking examples are triple-negative breast (TNBC), which frequently defective in repair DNA double strand breaks, e.g. due loss BRCA1 function. Because this defect, initially respond very well damage-inducing chemotherapy. Unfortunately, tumors usually not eradicated and resistant tumor...
Inefficient cerebral reperfusion is a major unresolved problem in ischemic stroke treatment because hypoxia-induced constriction of capillaries remains persistent even after recanalization by thrombolysis or thrombectomy. Capillary mediated actomyosin contraction precapillary smooth muscle cells (SMCs). We have developed and tested formulation administration technique to target the brain region promising small-molecule myosin-2 inhibitor (para-aminoblebbistatin (AmBleb) that mainly exerts...
Post-stroke muscle spasticity affects 37% of stroke survivors and disables self-supporting life management. There is a high unmet medical need for an efficient antispastic drug because current relaxants are often limited efficacy cause severe neurological cardiovascular side effects due to targeting the central or peripheral nervous system. We developed new-generation anti-spastic oral drug, MPH-220, which efficiently relaxes spastic skeletal muscles lacks adverse it selectively targets...