Research
- Research Topics
- Cell Biology and Tumor Biology
- Stem Cells and Cancer
- Inflammatory Stress in Stem Cells
- Experimental Hematology
- Molecular Embryology
- Signal Transduction and Growth Control
- Epigenetics
- Redox Regulation
- Vascular Oncology and Metastasis
- Clinical Neurobiology
- Molecular Neurogenetics
- Chaperones and Proteases
- Vascular Signaling and Cancer
- Molecular Neurobiology
- Mechanisms Regulating Gene Expression
- Molecular Biology of Centrosomes and Cilia
- Dermato-Oncology
- Pediatric Leukemia
- Tumour Metabolism and Microenvironment
- Personalized Medical Oncology
- Molecular Hematology - Oncology
- Cancer Progression and Metastasis
- Translational Surgical Oncology
- Neuronal Signaling and Morphogenesis
- Cell Signaling and Metabolism
- Cell Fate Engineering and Disease Modeling
- Cancer Drug Development
- Cell Morphogenesis and Signal Transduction
- Functional and Structural Genomics
- Molecular Genome Analysis
- Molecular Genetics
- Pediatric Neurooncology
- Cancer Genome Research
- Chromatin Networks
- Functional Genome Analysis
- Theoretical Systems Biology
- Neuroblastoma Genomics
- Signaling and Functional Genomics
- Signal Transduction in Cancer and Metabolism
- RNA-Protein Complexes and Cell Proliferation
- Systems Biology of Signal Transduction
- Areas of Interest
- Advancement of clinical proteomics for systems medicine
- Bridging from the single cell to the cell population – Epo-induced cellular responses and erythroleukemia
- Deciphering tumor microenvironment interactions determining lung cancer development
- Mechanisms controlling the compensation of liver injury and towards model-based biomarkers for early detection of liver cancer
- Application of dynamic pathway modelling for personalized medicine
- Group Members
- Publications
- Open Positions
- Funding
- Teaching
- Areas of Interest
- Molecular thoracic Oncology
- Proteomics of Stem Cells and Cancer
- Computational Genomics and System Genetics
- Applied Functional Genomics
- Applied Bioinformatics
- Translational Medical Oncology
- Metabolic crosstalk in cancer
- Pediatric Glioma Research
- Cancer Epigenomics
- Translational Pediatric Sarcoma Research
- Artificial Intelligence in Oncology
- Mechanisms of Genomic Variation and Data Science
- Neuropathology
- Pediatric Oncology
- Neurooncology
- Somatic Evolution and Early Detection
- Translational Control and Metabolism
- Soft-Tissue Sarcoma
- Precision Sarcoma Research
- Brain Mosaicism and Tumorigenesis
- Mechanisms of Genome Control
- Translational Gastrointestinal Oncology and Preclinical Models
- Translational Lymphoma Research
- Mechanisms of Leukemogenesis
- Genome Instability in Tumors
- Developmental Origins of Pediatric Cancer
- Brain Tumor Translational Targets
- Translational Functional Cancer Genomics
- Regulatory Genomics and Cancer Evolution
- SPRINT
- Cancer Risk Factors and Prevention
- Cancer Epidemiology
- Biostatistics
- Clinical Epidemiology and Aging Research
- Health Economics
- Physical Activity, Prevention and Cancer
- Preventive Oncology
- Personalized Early Detection of Prostate Cancer
- Digital Biomarkers for Oncology
- Tumorigenesis and molecular cancer prevention
- Genomic Epidemiology
- Cancer Survivorship
- Immunology and Cancer
- Cellular Immunology
- Molecular Oncology of Gastrointestinal Tumors
- Immunoproteomics
- Personalized Immunotherapy
- mRNA Cancer Immunotherapies
- Translational Immunotherapy
- B Cell Immunology
- Immune Diversity
- Structural Biology of Infection and Immunity
- Applied Tumor Immunity
- Neuroimmunology and Brain Tumor Immunology
- Adaptive Immunity and Lymphoma
- Dermal Oncoimmunology
- Immune Regulation in Cancer
- Systems Immunology and Single Cell Biology
- GMP & T Cell Therapy
- Immune Monitoring
- News
- Imaging and Radiooncology
- Radiology
- Research
- Computational Radiology Research Group
- Contrast Agents In Radiology Research Group
- Neuro-Oncologic Imaging Research Group
- Radiological Early Response Assessment Of Modern Cancer Therapies
- Imaging In Monoclonal Plasma Cell Disorders
- 7 Tesla MRI - Novel Imaging Biomarkers
- Functional Imaging
- Visualization And Forensic Imaging
- PET/MRI
- Dual- and Multienergy CT
- Radiomics Research Group
- Prostate Research Group
- Breast Imaging Research Group
- Bone marrow
- Musculoskeletal Imaging
- Microstructural Imaging Research Group
- Staff
- Patients
- Research
- Medical Physics in Radiology
- X-Ray Imaging and Computed Tomography
- Federated Information Systems
- Translational Molecular Imaging
- Medical Physics in Radiation Oncology
- Biomedical Physics in Radiation Oncology
- Intelligent Medical Systems
- Medical Image Computing
- Radiooncology - Radiobiology
- Smart Technologies for Tumor Therapy
- Radiation Oncology
- Molecular Radiooncology
- Nuclear Medicine
- Translational Radiation Oncology
- Molecular Biology of Systemic Radiotherapy
- Interactive Machine Learning
- Intelligent Systems and Robotics in Urology
- Multiparametric methods for early detection of prostate cancer
- Translational Molecular Imaging in Oncologic Therapy Monitoring
- Molecular Mechanisms of Head and Neck Tumors
- Radiology
- Infection, Inflammation and Cancer
- Tumor Virology
- Pathogenesis of Virus-Associated Tumors
- Immunotherapy and Immunoprevention
- Applied Tumor Biology
- Virotherapy
- Virus-associated Carcinogenesis
- Chronic Inflammation and Cancer
- Microbiome and Cancer
- Experimental Hepatology, Inflammation and Cancer
- Infections and Cancer Epidemiology
- Tumorvirus-specific Vaccination Strategies
- Mammalian Cell Cycle Control Mechanisms
- Molecular Therapy of Virus-Associated Cancers
- DNA Vectors
- Episomal-Persistent DNA in Cancer- and Chronic Diseases
- Cell Biology and Tumor Biology
- Research Groups A-Z
- Junior Research Groups
- Core Facilities
- Center for Preclinical Research
- Chemical Biology Core Facility
- Electron Microscopy
- Flow Cytometry
- Genomics and Proteomics
- Information Technology
- Library
- Kataloge -- Catalogues
- Zeitschriften - Journals
- E-Books - ebooks
- Datenbanken - Databases
- Dokument-Lieferung - Document Delivery
- Publikationsdatenbank - Publication database
- DKFZ Archiv - DKFZ Archive
- Open Access
- Science 2.0
- Ansprechpartner - Contact
- More Information - Service
- Anschrift - Address
- Antiquariat - Second Hand
- Aufstellungssystematik - Shelf Classification
- Ausleihe - Circulation
- Benutzerhinweise - Library Use
- Beschaffungsvorschläge - Desiderata
- Fakten und Zahlen - Facts and Numbers
- Kooperationen, Konsortien - Cooperations, Consortia
- Kopieren, Scannen - Copying, Scans
- Kurse, Führungen - Courses, Introductions
- DKFZ-Intern - internal only
- DEAL-Info
- Light Microscopy
- Omics IT and Data Management Core Facility
- Small Animal Imaging
- Metabolomics Core Technology Platform
- Data Science @ DKFZ
- INFORM
- Baden-Württemberg Cancer Registry
- Cooperations & Networks
- National Cooperations
- International Cooperations
- Cooperational Research Program with Israel: DKFZ - MOST in Cancer Research
- Program
- Members of the Program Committee
- Call
- Publication Database
- German-Israeli Cancer Research Schools
- Archive
- Heidelberg - Israel, Science and Culture
- Symposium 40 Years of German-Israeli Cooperation
- 35th Anniversary Symposium
- 34th Meeting of the DKFZ-MOST Program
- 40th Anniversary Publication
- 30th Anniversary Publication
- 20th Anniversary Publication
- Flyer - The Cancer Cooperation Program
- List Publications 1976-2004
- Highlight-Projects
- Cooperational Research Program with Israel: DKFZ - MOST in Cancer Research
- Cooperations with industrial companies
- DKFZ PostDoc Network
- Cross Program Topic RNA@DKFZ
- Cross Program Topic Epigenetics@dkfz
- Cross Program Topic Single Cell Sequencing
- WHO Collaborating Centers
- DKFZ Site Dresden
- Health + Life Science Alliance Heidelberg Mannheim
Projects
The concept of RNA dependence
We recently developed the concept of RNA dependence, where we defined a protein as RNA dependent when its interactome depends on the presence of RNA. This concept has been translated into a comprehensive proteome-wide, unbiased and quantitative screening method called R-DeeP.
R-DeeP is based on the fractionation of cellular lysate – with and without prior RNase treatment – by sucrose density gradient ultracentrifugation and subsequent analysis by proteome-wide mass spectrometry or Western blotting of individual proteins.
R-DeeP determines the ability of a protein to form protein complexes exclusively in the presence of RNA by direct or indirect interaction with the RNA molecules. In the R-DeeP screen, we identified a significant enrichment for microtubule-related proteins. This indicates previously unknown potential functional implications of RNA-protein interactions, particularly in the context of cell division. We are currently investigating selected candidates and characterizing their RNA-related
The RBP2GO database
The analysis of RNA-protein complexes is central to elucidating the complex molecular networks that govern cellular processes. With the increasing recognition of their importance, proteins that interact directly with RNA have attracted growing interest. However, the comprehensive but specific identification of such RNA-binding proteins (RBPs) and the dissection of their functions in association with RNA remain major challenges in the field of RNA biology.
To further deepen our knowledge of RBPs, several proteome-wide strategies have been developed to identify RBPs in different species. Thus, a large number of studies have provided catalogs of experimentally identified as well as predicted RBP candidates. The rapid evolution of the field has led to an accumulation of isolated datasets, hampering both accessibility and comparability. Furthermore, tools for linking RBPs to cellular pathways and functions were lacking. Driven by our own research and as a service to the scientific community, we developed RBP2GO, a comprehensive database of all available proteome-wide datasets for RBPs across 13 species, providing a catalog of 22552 RBP candidates (RBP2GO.DKFZ.de). It not only includes data on RBP interaction partners but also provides information on related biological processes, molecular functions, and cellular components.
RBP2GO provides a user-friendly web interface with a scoring system that reflects the potential of RBP candidates to be bona fide RBPs. The RBP2GO advanced search provides users with options to navigate through the interconnected datasets to promote and stimulate new research directions.
Ongoing projects are currently refining the list of RBPs by incorporating information on RNA-binding domains (RBDs) and RNA-related protein families. These multi-purpose analyses aim to refine the extensive list of RBP candidates and to provide a list of high confidence RBPs, based on a scoring system.