A5038910638- Markov Chains and Monte Carlo Methods
- Stochastic processes and financial applications
- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Point processes and geometric inequalities
- Plant Diversity and Evolution
- RNA modifications and cancer
- Modeling, Simulation, and Optimization
- Advanced Manufacturing and Logistics Optimization
- Mycorrhizal Fungi and Plant Interactions
- Genomics and Chromatin Dynamics
- DNA Repair Mechanisms
- Ecology and Vegetation Dynamics Studies
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- Optimization and Search Problems
- Evolution and Paleontology Studies
Max Perutz Labs
2020-2024
Medical University of Vienna
2020-2024
TU Wien
2018
Abstract Despite vast differences between organisms, some characteristics of their genomes are conserved, such as the nucleolus organizing region (NOR). The NOR is constituted multiple, highly repetitive rDNA genes, encoding catalytic ribosomal core RNAs which transcribed from 45S units. Their precise sequence information and organization remain uncharacterized. Here, using a combination long- short-read sequencing technologies we assemble contigs Arabidopsis NOR2 domain. We identify several...
We adapt ideas and concepts developed in optimal transport (and its martingale variant) to give a geometric description of stopping times τ Brownian motion subject the constraint that distribution is given probability μ . The methods work for large class cost processes. (At minimum we need process be measurable (Ft0)t≥0 -adapted. Continuity assumptions can used guarantee existence solutions.) find many processes one come up with, solution by first hitting time barrier suitable phase space....
Abstract For a set of binary unrooted subtrees generating all trees compatible with them, i.e. their stand, is one the classical problems in phylogenetics. Here, we introduce Gentrius – an efficient algorithm to tackle this task. The has direct application practice. Namely, generates phylogenetic terraces - topologically distinct, equally scoring due missing data. Despite stand generation being computationally intractable, showed on simulated and biological datasets that stands millions...
Abstract Despite vast differences between organisms, some characteristics of their genomes are conserved, such as the nucleolus organizing region (NOR). The NOR is constituted multiple, highly repetitive rDNA genes, encoding catalytic ribosomal core RNAs which transcribed from 45S units. Their precise sequence information and organization remained uncharacterized. We used a combination long- short-read sequencing technologies to assemble contigs Arabidopsis NOR2 domain providing first map....
We adapt ideas and concepts developed in optimal transport (and its martingale variant) to give a geometric description of stopping times Brownian motion subject the constraint that distribution time is given probability. The methods work for large class cost processes. (At minimum we need process be measurable adapted. Continuity assumptions can used guarantee existence solutions.) find many processes one come up with, solution by first hitting barrier suitable phase space. As by-product...
Abstract Phylogenetic trees are routinely built from huge and yet incomplete multi-locus datasets often leading to phylogenetic terraces – topologically distinct equally scoring trees, which induce the same set of per locus subtrees. As typical tree inference software outputs only a single tree, identifying all with identical score challenges phylogenomics. Generating terrace requires constructing so-called stand for corresponding induced Here, we introduce Gentrius an efficient algorithm...