A5042757297- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- RNA modifications and cancer
- Advanced Proteomics Techniques and Applications
- Molecular Biology Techniques and Applications
- Helicobacter pylori-related gastroenterology studies
- Environmental DNA in Biodiversity Studies
- Galectins and Cancer Biology
- Ubiquitin and proteasome pathways
- Mass Spectrometry Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Genomics and Phylogenetic Studies
- CRISPR and Genetic Engineering
- Genetics, Aging, and Longevity in Model Organisms
- Endoplasmic Reticulum Stress and Disease
- Genomics and Chromatin Dynamics
- Cellular transport and secretion
- interferon and immune responses
- Cancer, Hypoxia, and Metabolism
- MicroRNA in disease regulation
- Protein Degradation and Inhibitors
- Neuroblastoma Research and Treatments
- Mitochondrial Function and Pathology
- Pancreatic function and diabetes
- Glycosylation and Glycoproteins Research
Max Delbrück Center
2016-2025
Harvard University
2024-2025
Charité - Universitätsmedizin Berlin
2016-2024
Weatherford College
2024
Humboldt-Universität zu Berlin
2011-2022
Freie Universität Berlin
2022
Helmholtz Association of German Research Centres
2018-2021
Proteome Sciences (United Kingdom)
2016-2019
Max Planck Institute of Biochemistry
2005-2009
Max Planck Society
2001-2008
The gastric pathogen <i>Helicobacter pylori</i> uses a type IV secretion system to inject the bacterial CagA protein into epithelial cells. Within host cell, becomes phosphorylated on tyrosine residues and initiates cytoskeletal rearrangements. We demonstrate here that Src-like protein-tyrosine kinases mediate phosphorylation <i>in vitro</i> vivo</i>. First, Src-specific kinase inhibitor PP2 specifically blocks rearrangements thereby inhibiting CagA-induced hummingbird phenotype of Second,...
Current methods for system-wide gene expression analysis detect changes in mRNA abundance, but neglect regulation at the level of translation. Pulse labeling with stable isotopes has been used to measure protein turnover rates, this does not directly provide information about translation rates. Here, we developed pulsed isotope by amino acids cell culture (pSILAC) two heavy labels quantify on a proteome-wide scale. We applied method cellular iron homeostasis as model system and demonstrate...
Do young and old protein molecules have the same probability to be degraded? We addressed this question using metabolic pulse-chase labeling quantitative mass spectrometry obtain degradation profiles for thousands of proteins. find that >10% proteins are degraded non-exponentially. Specifically, less stable in first few hours their life stabilize with age. Degradation conserved similar two cell types. Many non-exponentially (NED) subunits complexes produced super-stoichiometric amounts...
Detailed knowledge of the molecular biology severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection is crucial for understanding viral replication, host responses, and disease progression. Here, we report gene expression profiles three SARS-CoV- SARS-CoV-2-infected human cell lines. SARS-CoV-2 elicited an approximately two-fold higher stimulation innate immune response compared to SARS-CoV in epithelial line Calu-3, including induction miRNA-155. Single-cell RNA sequencing...
There is increasing evidence that transcripts or transcript regions annotated as non-coding can harbor functional short open reading frames (sORFs). Loss-of-function experiments have identified essential developmental physiological roles for a few of the encoded peptides (micropeptides), but genome-wide experimental computational identification sORFs remains challenging. Here, we expand our previously developed method and present results an integrated pipeline conserved in human, mouse,...
Protein subcellular localization is fundamental to the establishment of body axis, cell migration, synaptic plasticity, and a vast range other biological processes. occurs through three mechanisms: protein transport, mRNA localization, local translation. However, relative contribution each process neuronal polarity remains unknown. Using neurons differentiated from mouse embryonic stem cells, we analyze RNA expression translation rates in isolated bodies neurites genome-wide. We quantify...
Abstract Recent methodological advances allowed the identification of an increasing number RNA-binding proteins (RBPs) and their sites. Most those methods rely, however, on capturing associated to polyadenylated RNAs which neglects RBPs bound non-adenylate RNA classes (tRNA, rRNA, pre-mRNA) as well vast majority species that lack poly-A tails in mRNAs (including all archea bacteria). We have developed Phenol Toluol extraction (PTex) protocol does not rely a specific sequence or motif for...
Mutations in the gene encoding RNA-binding protein RBM20 have been implicated dilated cardiomyopathy (DCM), a major cause of chronic heart failure, presumably through altering cardiac RNA splicing. Here, we combined transcriptome-wide crosslinking immunoprecipitation (CLIP-seq), RNA-seq, and quantitative proteomics cell culture rat human hearts to examine how regulates alternative splicing heart. Our analyses revealed presence distinct RNA-recognition element that is predominantly found...
Abstract Aberrant expression of MYC transcription factor family members predicts poor clinical outcome in many human cancers. Oncogenic profoundly alters metabolism and mediates an antioxidant response to maintain redox balance. Here we show that MYCN induces massive lipid peroxidation on depletion cysteine, the rate-limiting amino acid for glutathione (GSH) biosynthesis, sensitizes cells ferroptosis, oxidative, non-apoptotic iron-dependent type cell death. The high cysteine demand...
Abstract Accessing the natural genetic diversity of species unveils hidden traits, clarifies gene functions and allows generalizability laboratory findings to be assessed. One notable discovery made in isolates Saccharomyces cerevisiae is that aneuploidy—an imbalance chromosome copy numbers—is frequent 1,2 (around 20%), which seems contradict substantial fitness costs transient nature aneuploidy when it engineered 3–5 . Here we generate a proteomic resource merge with genomic 1...