Matthias Ganzinger

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Cell lines are frequently used as highly standardized and reproducible in vitro models for biomedical analyses and assays. Cell lines are distributed by cell banks that operate databases describing their products. However, the description of the cell lines' properties are not standardized across different cell banks. Existing cell line-related ontologies(More)
Research data and biospecimen repositories are valuable resources for biomedical investigators. Sharing these resources has great potential benefits including efficient use of resources, avoiding duplicate experiments, gathering adequate sample sizes, and promoting collaboration. However, concerns from data producers about difficulties of getting proper(More)
We investigated for a research network on liver cancer semantic prerequisites for successful data sharing. To support collaboration with information technology, it is important to annotate research data with metadata. Ideally, all data handled are described ontologically to allow for automated reasoning. However, a complete ontology is hard to define. As a(More)
In biomedical research, a variety of data like clinical, genetic, expression of coding or non-coding ribonucleic acid (RNA) transcripts, or proteomic data are processed to gain new insights into diseases and therapies. In transregional research networks, geographically distributed projects work on comparable research questions with data from different(More)
Biomedical research networks need to integrate research data among their members and with external partners. To support such data sharing activities, an adequate information technology infrastructure is necessary. To facilitate the establishment of such an infrastructure, we developed a reference model for the requirements. The reference model consists of(More)
Systems medicine is a current approach trying to improve treatment for patients with complex diseases by analyzing as much phenotype and genotype data as possible for the disease in question. For individualized treatment decisions in clinical practice, this task has to be supported by an application system with decision support component. For a research(More)
Systems medicine aims to support treatment of complex diseases like cancer by integrating all available data for the disease. To provide such a decision support in clinical practice, a suitable IT architecture is necessary. We suggest a generic architecture comprised of the following three layers: data representation, decision support, and user interface.(More)
In times of high-throughput DNA sequencing techniques, performance-capable analysis of DNA sequences is of high importance. Computer supported DNA analysis is still an intensive time-consuming task. In this paper we explore the potential of a new In-Memory database technology by using SAP's High Performance Analytic Appliance (HANA). We focus on read(More)