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Article Reference Genetic variation in human drug-related genes
Article Reference The immunopeptidomic landscape of ovarian carcinomas
Immunotherapies, particularly checkpoint inhibitors, have set off a revolution in cancer therapy by releasing the power of the immune system. However, only ...
Article Reference Whither Systems Medicine?
Article Reference Differential Enzymatic 16O/18O Labelling for the Detection of Cross-Linked Nucleic Acid-Protein Heteroconjugates
Cross-linking of nucleic acids to proteins in combination with mass spectrometry permits the precise identification of interacting residues between nucleic ...
Article Reference The future of metabolomics in ELIXIR [version 1; referees: awaiting peer review]
Preprint Reference Genetic variation in human drug-related genes
Variability in drug efficacy and adverse effects are observed in clinical practice. While the extent of genetic variability in classical pharmacokinetic genes ...
Article Reference A community proposal to integrate proteomics activities in ELIXIR
Computational approaches have been major drivers behind the progress of proteomics in recent years. The aim of this white paper is to provide a framework for ...
Article Reference SANDPUMA: Ensemble Predictions of Nonribosomal Peptide Chemistry Reveals Biosynthetic Diversity across Actinobacteria
Summary: Nonribosomally synthesized peptides (NRPs) are natural products with widespread applications in medicine and biotechnology. Many algorithms have been ...
Article Reference OpenMS - A platform for reproducible analysis of mass spectrometry data
In recent years, several mass spectrometry-based omics technologies emerged to investigate qualitative and quantitative changes within thousands of ...
Article Reference The mzIdentML data standard version 1.2, supporting advances in proteome informatics
The first stable version of the Proteomics Standards Initiative mzIdentML open data standard (version 1.1) was published in 2012 - capturing the outputs of ...
News Item Medical Informatics Initiative
University of Tübingen partners up with Bavarian universities to establish medical informatics infrastructure for future medicine.
Article Reference ImmunoNodes - Graphical Development of Complex Immunoinformatics Workflows
BACKGROUND: Immunoinformatics has become a crucial part in biomedical research. Yet many immunoinformatics tools have command line interfaces only and can be ...
Conference Reference Scaling Home Automation to Public Buildings: A Distributed Multiuser Setup for OpenHAB 2
Home automation systems can help to reduce energy costs and increase comfort of living by adjusting room temperatures according to schedules, rules, and sensor ...
Article Reference HLA ligandome analysis of primary chronic lymphocytic leukemia (CLL) cells under lenalidomide treatment confirms the suitability of lenalidomide for combination with T-cell based immunotherapy
We recently completed a phase I/IIa trial of RNActive® CV9201, a novel mRNA-based therapeutic vaccine targeting five tumor-associated antigens in non-small ...
News Item Bioinformatics in the Cloud
The German Network for Bioinformatics Infrastructure has been expanded and our lab is coordinating a part of it.
Article Reference A meta-analysis of HLA peptidome composition in different hematological entities: Entity-specific dividing lines and "pan-leukemia" antigens
Hematological malignancies (HM) are highly amenable targets for immunotherapeutic intervention and may be effectively treated by antigen-specific T-cell based ...
Preprint Reference Containerization and wrapping of a mass spectra prediction workflow
Practical experiences are reported about implementing a workflow for the prediction of mass spectra. QCEIMS is used to simulate the fragmentation trajectories ...
Article Reference Structural and functional characterization of the bacterial type III secretion export apparatus
Bacterial type III protein secretion systems inject effector proteins into eukaryotic host cells in order to promote survival and colonization of Gram-negative ...
News Item Piece about OpenMS in the blog of the Software Sustainability Institute
The article is part of the SSI series 'A day in the software life,' in which researchers from all disciplines discuss the tools that make their research ...
Article Reference Distinct transcriptional changes in non-small cell lung cancer patients associated with multi-antigenic RNActive® CV9201 immunotherapy
We recently completed a phase I/IIa trial of RNActive® CV9201, a novel mRNA-based therapeutic vaccine targeting five tumor-associated antigens in non-small ...
Article Reference Copper oxide nanoparticle toxicity profiling using untargeted metabolomics
Background The rapidly increasing number of engineered nanoparticles (NPs), and products containing NPs, raises concerns for human exposure and safety. With ...
Article Reference In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics
In mass spectrometry-based shotgun proteomics, protein identifications are usually the desired result. However, most of the analytical methods are based on the ...
Article Reference LFQProfiler and RNPxl: Open-Source Tools for Label-Free Quantification and Protein-RNA Cross-Linking Integrated into Proteome Discoverer
Modern mass spectrometry setups used in today's proteomics studies generate vast amounts of raw data, calling for highly efficient data processing and analysis ...
Article Reference OpenMS: A flexible open-source software platform for mass spectrometry data analysis
High-resolution mass spectrometry (MS) has become an important tool in the life sciences, contributing to the diagnosis and understanding of human diseases, ...
Article Reference Personalized peptide vaccine induced immune response associated with long-term survival of a metastatic cholangiocarcinoma patient
BACKGROUND & AIMS: We report a novel experimental immunotherapeutic approach in a patient with metastatic intrahepatic cholangiocarcinoma. In the 5year course ...
News Item New job offers
We have several new openings for PhD students and postdocs....
File Offer_CompMS_2016-06-28.pdf
News Item New Nature Methods paper: what's in the 'dark proteome'?
Our new Nature Methods paper looks into the majority of mass spectra that still remain unidentified in proteomics experiments and gives hints at what is ...
File Job_Offer_Biomolecular_Interactions_2016-06-27.pdf
Article Reference Ten Simple Rules for Taking Advantage of git and GitHub
A ’Ten Simple Rules’ guide to git and GitHub. We describe and provide examples on how to use these software to track projects, as users, teams and ...