A5056265832- Genomics and Phylogenetic Studies
- Protein Structure and Dynamics
- RNA and protein synthesis mechanisms
- RNA modifications and cancer
- Advanced Proteomics Techniques and Applications
- Enzyme Structure and Function
- Metabolomics and Mass Spectrometry Studies
- Mass Spectrometry Techniques and Applications
- Anomaly Detection Techniques and Applications
- Biofield Effects and Biophysics
- COVID-19 epidemiological studies
- Data-Driven Disease Surveillance
- Plant nutrient uptake and metabolism
- Natural Language Processing Techniques
- Cancer-related molecular mechanisms research
- Algorithms and Data Compression
- Electromagnetic Fields and Biological Effects
Johannes Gutenberg University Mainz
2018-2023
Czech Academy of Sciences, Institute of Computer Science
2021
Abstract Reverse transcription (RT) of RNA templates containing modifications leads to synthesis cDNA information on the modification in form misincorporation, arrest, or nucleotide skipping events. A compilation such events from multiple cDNAs represents an RT-signature that is typical for a given modification, but, as we show here, depends also reverse transcriptase enzyme. comparison 13 different enzymes revealed range RT-signatures, with individual exhibiting average arrest rates between...
Semantic Partitioning Through Contextual Attention Weighting introduces a transformative approach to enhancing the efficiency and precision of attention mechanisms in transformer-based architectures. novel hierarchical framework, is dynamically distributed based on semantic relevance token partitions, significantly reducing redundancy improving clarity contextual representation. The method integrates dual-layer mechanism adaptive gating, enabling more granular alignment with underlying...
Methods for the detection of m6A by RNA-Seq technologies are increasingly sought after. We here present NOseq, a method to detect residues in defined amplicons virtue their resistance chemical deamination, effected nitrous acid. Partial deamination NOseq affects all exocyclic amino groups nucleobases and thus also changes sequence information. The uses mapping algorithm specifically adapted degeneration caused events. Thus, sites with partial modification levels ∼50% were detected amplicons,...
Modification mapping from cDNA data has become a tremendously important approach in epitranscriptomics. So-called reverse transcription signatures contain information on the position and nature of their causative RNA modifications. Data mining of, e.g. Illumina-based high-throughput sequencing data, is therefore fast growing importance, field still lacking effective tools. Here we present versatile user-friendly graphical workflow system for modification calling based machine learning. The...
Timely information on current infection numbers during an epidemic is of crucial importance for decision makers in politics, medicine, and businesses. As about local risk can guide public policy as well individual behavior, such the wearing personal protective equipment or voluntary social distancing, statistical models providing insights should be transparent reproducible accurate. Fulfilling these requirements drastically complicated by large amounts data generated exponential growth...
Mass spectrometry is an important experimental technique in the field of proteomics. However, analysis certain mass data faces a combination two challenges: first, even single experiment produces large amount multi-dimensional raw and, second, signals interest are not peaks but patterns that span along different dimensions. The rapidly growing increases demand for scalable solutions. Furthermore, existing approaches signal detection usually rely on strong assumptions concerning properties.In...
Mass spectrometry is an important experimental technique in the field of proteomics. However, analysis certain mass data faces a combination two challenges: First, even single experiment produces large amount multi-dimensional raw and, second, signals interest are not peaks but patterns that span along different dimensions. The rapidly growing increases demand for scalable solutions. Existing approaches signal detection usually well suited processing amounts parallel or rely on strong...