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Q1: What are the evolutionary forces that have shaped the genomes of contemporary organisms and how can we infer the relevant parameters from multiple sequence alignments?
Q2: Can we develop mathematical, statistical and computational tools that help to analyse big data as generated by high throughput technologies in molecular biology?
Mathematical Models and efficient bioinformatics tools are the cornerstones to work on both questions. We develop such models and turn them into applicable software products for a wide user community. To understand the evolutionary forces, we are developing complex models of sequence evolution that in conjunction with tree reconstruction algorithms provide a comprehensive picture about the historical relationship of organisms and the changes that occur in a gene over time. Our approaches to Q2 are more diverse and are tailored to the special needs of high throughput technologies. We are interested in developing “stand-alone tools”, that can infer all relevant parameters from the input data.
Arndt von Haeseler's birthday is in 1959.
CIBIV-Website: www.cibiv.at
We developed an efficient tree reconstruction algorithm to take the patchy structure of genomic alignments into account and to infer large phylogenetic trees. These methods have been included in the widely used software tool IQ-TREE (http://www.iqtree.org).
We tackled the following problem: For NGS experiments using unique molecular identifiers (UMIs), molecules that are lost entirely during sequencing cause under-estimation of the molecule count, and amplification artifacts like PCR chimeras cause over-estimation. TRUmiCount corrects UMI data for both types of errors, thus improving the accuracy of measured molecule counts considerably (https://cibiv.github.io/trumicount/).
ModelFinder: fast model selection for accurate phylogenetic estimates.
Kalyaanamoorthy, Subha; Minh, Bui Quang; Wong, Thomas K F; von Haeseler, Arndt; Jermiin, Lars S
TRUmiCount: Correctly counting absolute numbers of molecules using unique molecular identifiers.
Pflug, Florian G; von Haeseler, Arndt
Next-generation sequencing diagnostics of bacteremia in septic patients.
Grumaz, Silke; Stevens, Philip; Grumaz, Christian; Decker, Sebastian O; Weigand, Markus A; Hofer, Stefan; Brenner, Thorsten; von Haeseler, Arndt; Sohn, Kai
NextGenMap: fast and accurate read mapping in highly polymorphic genomes.
Sedlazeck, Fritz J; Rescheneder, Philipp; von Haeseler, Arndt
The von Haeseler group participates in the special Doctoral Program "RNA Biology" reviewed and funded by the Austrian Research Fund FWF.
The Group Von Haeseler participates in the Special Research Area (SFB) "RNA-Reg - RNA regulation of the transcriptome" funded by the Austrian Science Fund FWF. SFB's are peer-reviewed, highly interactive research networks, established to foster long-term, interdisciplinary co-operation of local research groups working on the frontiers of their thematic areas.
The FWF project "Parallel computing for phylogenetic interference" funds an international collaborative effort to optimize and improve bioinformatic analysis methods for molecular data. The final aim of the project is to implement those new methods and models to be scalable on all modern multi-core, accelerator and supercomputer architectures.
The Group von Haeseler is an associated member of the special Doctoral Program "Signaling Mechanisms in Cellular Homeostasis" reviewed and funded by the Austrian Research Fund FWF.
VBC Industry Insights x BioNTech RandD Austria
Profiling and programming in vitro human neuronal diversity at single-cell resolution
18th Microsymposium on RNA Biology
The „Microsymposium on RNA Biology“ is an international conference that brings together young scientists, junior and senior group leaders, and company representatives from all over the world to present and discuss their latest findings in the exciting field of small RNAs and beyond. The Microsymposium was founded in 2005 and has established itself as the major small RNA meeting in Europe. It is organized by the four research institutions IMBA, IMP, GMI and the Max Perutz Labs as well as by the RNA community of the Vienna BioCenter.
Transformation Reactions of Organic Contaminants and Oxygen: From Field Sites to Reaction Mechanisms
Title to be announced
Multiscale plant bioimaging using advanced microscopy
Parthenogenesis, cryptobiosis, and the survival in extreme environmental conditions
Evading ageing: Mitochondrial and proteostatic adaptations in oocytes
Genomes in Rhodnius prolixus symbiotic system
Stem cells, immune evasion and metastasis in colorectal cancer
Ubiquitin & Friends Symposium 2024
The Ubiquitin & Friends Symposium is an annual international meeting taking place in the beautiful capital of Austria, aiming to bring together scholars from various fields studying ubiquitin/Ubl biology and protein degradation in a personal, family-like atmosphere, as suggested by the name.
The evolution and development of mollusc shells
Unraveling the Complexity of Crossover Regulation in C. elegans
Dynamics of 3D Genome Structure and Function
How superworms can help to solve our plastic waste crisis
New players in an old pathway: biology of methanogens of the TACK superphylum
Shaping morphogen gradients: from molecules to tissues and back
Studying stressed cells by in situ structural biology
Exploring Microbial Resilience: Unravelling Escherichia coliand#x27;s Stress Response at the Level of Protein Synthesis
Arbuscular mycorrhiza development and function
Deep homology and deep diversity: Evolving genetic toolkits for making and sensing light
The evolution of cell type identity and tissue microecology at the fetal-maternal interface
The unanticipated roles of PICIs and phages in bacterial evolution
Chemical targeting of subcellular protein localization
Origin and diversification of gut-derived organs in chordates
Job's Dilemma for the Genome: Why Bad Things Happen to Good Chromosomes
Connections between carbon and nitrogen cycling in the ocean
Understanding how the DNA-loop-extruding protein complex Condensin folds a chromatinized genome into mitotic chromosomes
From Roads to Rivers? Occurrence and environmental fate of tire and road wear particles and of tire-related chemicals
FENS 2024 Satellite event: Home cage behavior monitoring at the interface of animal welfare and neuroscience
Striking physiology and cell biology of (marine) environmental microorganisms
Mechanisms controlling maintenance of cohesin dependent loops
Title to be announced