A5072973194- HER2/EGFR in Cancer Research
- Monoclonal and Polyclonal Antibodies Research
- Gene expression and cancer classification
- RNA Research and Splicing
- RNA and protein synthesis mechanisms
- Cancer-related gene regulation
- Genomics and Phylogenetic Studies
- Bioinformatics and Genomic Networks
- Ubiquitin and proteasome pathways
- Genomics and Chromatin Dynamics
- Cancer Genomics and Diagnostics
- Fungal and yeast genetics research
- Click Chemistry and Applications
- Cell Image Analysis Techniques
- Advanced Biosensing Techniques and Applications
- Machine Learning in Bioinformatics
- Viral Infectious Diseases and Gene Expression in Insects
- Fungal Biology and Applications
- RNA modifications and cancer
- Microtubule and mitosis dynamics
- Mitochondrial Function and Pathology
- Algorithms and Data Compression
- Advanced Proteomics Techniques and Applications
- Plant nutrient uptake and metabolism
- Virus-based gene therapy research
FH Campus Wien
2025
Goethe University Frankfurt
2018-2024
European Molecular Biology Laboratory
2011-2017
European Molecular Biology Laboratory
2009-2011
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2011
Genoscope
2011
Centre National de la Recherche Scientifique
2011
Sapienza University of Rome
2009
University of Bergen
2009
European Bioinformatics Institute
2009
Linear motifs are short, evolutionarily plastic components of regulatory proteins and provide low-affinity interaction interfaces. These compact modules play central roles in mediating every aspect the functionality cell. They particularly prominent cell signaling, controlling protein turnover directing localization. Given their importance, our understanding is surprisingly limited, largely as a result difficulty discovery, both experimentally computationally. The Eukaryotic Motif (ELM)...
The eukaryotic linear motif (ELM http://elm.eu.org) resource is a hub for collecting, classifying and curating information about short motifs (SLiMs). For >10 years, this has provided the scientific community with freely accessible guide to biology function of motifs. current version ELM contains ∼200 different classes over 2400 experimentally validated instances manually curated from >2000 publications. Furthermore, detailed motif-mediated interactions been annotated made available in...
Linear motifs are short segments of multidomain proteins that provide regulatory functions independently protein tertiary structure. Much intracellular signalling passes through modifications at linear motifs. Many thousands motif instances, most notably phosphorylation sites, have now been reported. Although clearly very abundant, difficult to predict de novo in sequences due the difficulty obtaining robust statistical assessments. The ELM resource http://elm.eu.org/ provides an expanding...
Nucleic acid and histone modifications critically depend on the tricarboxylic (TCA) cycle for substrates cofactors. Although a few TCA enzymes have been reported in nucleus, corresponding pathways are considered to operate mitochondria. Here, we show that part of is operational also nucleus. Using 13 C-tracer analysis, identified activity glutamine-to-fumarate, citrate-to-succinate, glutamine-to-aspartate routes nuclei HeLa cells. Proximity labeling mass spectrometry revealed spatial...
Mutations causing aberrant splicing are frequently implicated in human diseases including cancer. Here, we establish a high-throughput screen of randomly mutated minigenes to decode the cis-regulatory landscape that determines alternative exon 11 proto-oncogene MST1R (RON). Mathematical modelling kinetics enables us identify more than 1000 mutations affecting RON skipping, which corresponds pathological isoform RON∆165. Importantly, effects correlate with cancer patients bearing same...
The yeast integral membrane protein Ist2 is encoded by a bud-localised mRNA and accumulates at patch-like domains of the cell periphery, either cortical ER or ER-associated plasma membrane. Transport IST2 local synthesis are not prerequisite for this localisation, indicating that can travel through general to membranes periphery. Here, we describe accumulation requires cytosolically exposed complex sorting signal interact with lipids Binding rapid efficient transport from perinuclear depend...
The RNA-chaperone Hfq catalyses the annealing of bacterial small RNAs (sRNAs) with target mRNAs to regulate gene expression in response environmental stimuli. acts on a diverse set sRNA-mRNA pairs using variety different molecular mechanisms. Here, we present an unusual crystal structure showing two Hfq-RNA complexes interacting via their bound RNA molecules. contains Hfq6:A18 assemblies positioned face-to-face, molecules turned towards each other and connected interdigitating base stacking...
Abstract Asymmetric localization of the ASH1 transcript is a central step in regulation mating type switching Saccharomyces cerevisae and paradigm for localized mRNAs specifically recognized by She2p/3p transport machinery. Four RNA elements are known to mediate bud localization, but it remained unclear what consensus motif all four recognition sites (SRS) might look like. In this study, we derive SRS motif, which characterized an L-shaped, double-stranded conformation with two...
The wealth of transcript information that has been made publicly available in recent years requires the development high‐throughput functional genomics and proteomics approaches for its analysis. Such need suitable data integration procedures a high level automation order to gain maximum benefit from results generated. We have designed an automatic pipeline analyse annotated open reading frames (ORFs) stemming full‐length cDNAs produced mainly by German cDNA Consortium. ORFs are cloned into...
Abstract Background The identification of patterns in biological sequences is a key challenge genome analysis and proteomics. Frequently such are complex highly variable, especially protein sequences. They frequently described using terms regular expressions (RegEx) because the user-friendly terminology. Limitations arise for queries with increasing complexity accompanied by requirements enhanced capabilities. This true containing ambiguous characters positions and/or length ambiguities....
Abstract Cancer transcription microarray studies commonly deliver long lists of “candidate” genes that are putatively associated with the respective disease. For many these genes, no functional information, even less their relevance in pathologic conditions, is established as they were identified large-scale genomics approaches. Strategies and tools thus needed to distinguish proteins mere tumor association from those causally related cancer. Here, we describe a profiling approach, where...
Nucleic acid and histone modifications critically depend on central metabolism for substrates co-factors. Although a few enzymes related to the formation of these required metabolites have been reported in nucleus, corresponding metabolic pathways are considered function elsewhere cell. Here we show that substantial part mitochondrial tricarboxylic (TCA) cycle, biosynthetic hub epigenetic modification factors, is operational also nucleus. Using 13 C-tracer analysis, identified activity...
Clb2 is a conserved mitotic B-type cyclin, the levels of which are finely controlled to drive progression through cell cycle. While it known that CLB2 transcription and protein degradation important for precise control its expression, remains unclear whether synthesis also regulated. To address how expression respond growth changes adapt cycle progression, we combined single-cell single-molecule imaging methods measure mRNA throughout Saccharomyces cerevisiae We found was efficiently...
Cellular senescence plays a crucial role in skin aging, with senescent dermal fibroblasts contributing to reduced elasticity and increased inflammation. This study investigated the potential of Ganoderma lucidum (Reishi) extract modulate phenotype human fibroblasts. Etoposide-induced were treated Reishi extracts from two commercial sources for 14 days. Gene expression analysis was performed using qPCR assess markers senescence, antioxidant defense, extracellular matrix remodeling. Results...
Supplementary Figures S1-S3 Legends from Functional Profiling: From Microarrays via Cell-Based Assays to Novel Tumor Relevant Modulators of the Cell Cycle
Supplementary Figure S1A-2 from Functional Profiling: From Microarrays via Cell-Based Assays to Novel Tumor Relevant Modulators of the Cell Cycle
Supplementary Figure S1B from Functional Profiling: From Microarrays via Cell-Based Assays to Novel Tumor Relevant Modulators of the Cell Cycle
Supplementary Figure S2 from Functional Profiling: From Microarrays via Cell-Based Assays to Novel Tumor Relevant Modulators of the Cell Cycle
Supplementary Figure S2 from Functional Profiling: From Microarrays via Cell-Based Assays to Novel Tumor Relevant Modulators of the Cell Cycle