A5008604071- Machine Learning in Bioinformatics
- Genomics and Rare Diseases
- Bioinformatics and Genomic Networks
- Protein Structure and Dynamics
- Cancer Genomics and Diagnostics
- Enzyme Structure and Function
- RNA modifications and cancer
- Immune Cell Function and Interaction
- T-cell and B-cell Immunology
- Genomics and Phylogenetic Studies
- Algorithms and Data Compression
- Image Processing Techniques and Applications
- Cancer Cells and Metastasis
- CAR-T cell therapy research
- Digital Imaging for Blood Diseases
- Cell Image Analysis Techniques
ETH Zurich
2023-2024
University Hospital of Zurich
2022
After antigen stimulation, naïve T cells display reproducible population-level responses, which arise from individual pursuing specific differentiation trajectories. However, cell-intrinsic predeterminants controlling these single-cell decisions remain enigmatic. We found that the subcellular architectures of CD8 cells, defined by presence (T
Abstract Characterising cellular phenotypic heterogeneity is essential to understand the relationship between molecular and morphological determinants of state. Here we report that publicly available self-supervised vision transformers (ss-ViTs) accurately elucidate stem cell out-of-the-box. Moreover, introduce scDINO, an adapted ss-ViT trained on five-channel automated microscopy data, attaining excellent performance in delineating peripheral blood immune identity. Thus, ss-ViTs represent a...
PURPOSE Comprehensive targeted next-generation sequencing (NGS) panels are routinely used in modern molecular cancer diagnostics. In tumor boards, the detected genomic alterations often discussed to decide next treatment options for patients with cancer. With increasing size and complexity of NGS panels, discussion these results becomes increasingly complex, especially if they reported a text-based form, as it is standard current pathology. METHODS We have developed Molecular Tumor Profiling...
<ns4:p>Aligning protein isoform sequences is often performed in cancer diagnostics to homogenise mutation annotations from different diagnostic assays. However, most alignment tools are fitted for homologous sequences, leading alignments of non-identical exonic regions. Here, we present the interactive webservice IsoAligner exact mapping subsequences. The tool uses a customized Needleman-Wunsch algorithm including an open gap penalty combined with gene-specific minimal exon length function...
ABSTRACT Comprehensive targeted Next Generation Sequencing (NGS) panels are routinely used in modern molecular cancer diagnostics. In tumor boards the detected genomic alterations often discussed to decide next treatment options for patient. With increasing size and complexity of NGS panels, discussion these results becomes increasingly complex, especially if they reported a text-based form, as it is standard current pathology. We developed Molecular Tumor Profiling pilot ( MTPpilot )...