I’m a trained biophysicist and develop integrated approaches combining fluorescence imaging, computerized image analysis, and mathematical modeling. Equipped with these skills, I want to contribute to a better quantitative understanding of biological processes. My current focus is on gene expression, however, this integrated approach can be readily applied to other biological questions where imaging and modeling form an integral part to obtain a deeper quantitative understanding.
Fluorescence microscopy is a defining technology in cellular biology but the diffraction of light limits the resolution of standard microscopes to ~200 nm, thus preventing detailed analyses of molecular structures. We are actively interested […]
Nuclear architecture and function
The one-dimensional sequence of the genome is carried by long polymers (chromosomes), which fold in the three dimensional volume of the nucleus. How this folding occurs and what it implies for genome function remains […]
FISH-quant: automatically counting transcripts in RNA-FISH images
A free Matlab-based toolbox to detect and count individual mRNA transcripts in single cells by automatic analysis of 3D RNA-FISH images. Software is available freely together with extensive instructions at : https://code.google.com/p/fish-quant/. The […]
- Graz University of Technology, Austria and National Institutes of Health (NIH), Bethesda; 2005 – 2008
- Thesis: Quantitative analysis of the dynamic properties of chromatin associated proteins by FRAP experiments
- Advisors: Dr. James G. McNally, Dr. Zlatko Trajanoski
- Computational Physics, Universität Graz, Austria, 1999 – 2005
- Thesis: Numerical Simulations of FRAP Experiments
- Advisors: Dr. Max Lippitsch, Dr. Zlatko Trajanoski
2023An interactive murine single-cell atlas of the lung responses to radiation injury., Nat Commun 2023 Apr; 14(1): 2445.
2023A specific molecular signature in SARS-CoV-2-infected kidney biopsies., JCI Insight 2023 Mar; 8(5): .
2023PointFISH: Learning Point Cloud Representations for RNA Localization Patterns, Computer Vision – ECCV 2022 Workshops.
2023Excessive self-grooming, gene dysregulation and imbalance between the striosome and matrix compartments in the striatum of Shank3 mutant mice., Front Mol Neurosci 2023 ; 16(): 1139118.
2022HT-smFISH: a cost-effective and flexible workflow for high-throughput single-molecule RNA imaging., Nat Protoc 2022 Oct; (): .
2022Sensitive visualization of SARS-CoV-2 RNA with CoronaFISH., Life Sci Alliance 2022 Apr; 5(4): .
2022FISH-quant v2: a scalable and modular tool for smFISH image analysis., RNA 2022 06; 28(6): 786-795.
2022piRNAs initiate transcriptional silencing of spermatogenic genes during C. elegans germline development., Dev Cell 2022 Jan; 57(2): 180-196.e7.
2021The kinesin KIF1C transports APC-dependent mRNAs to cell protrusions., RNA 2021 Dec; 27(12): 1528-1544.
2021Live single-cell transcriptional dynamics via RNA labelling during the phosphate response in plants., Nat Plants 2021 08; 7(8): 1050-1064.
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