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This page was last modified on 27 Jan 2025 27 Jan 2025 .
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Mass spectrometry is the work-horse technology of the emerging field of metabolomics. Community-wide accepted data models and XML formats for data interchange such as mzData are currently in development. The information contained in these models is sufficient to create applications and databases in a model driven architecture (MDA). This allows to (re-)create the necessary code basis and backend database with minimal manual coding. We present an infrastructure to support the use of these data standards. It uses the Eclipse framework to generate Java objects, XML input/output, database persistence and a user-friendly editor for both the XML files and database content. A prototype of a Web frontend has been created to view, verify and upload to such a repository
Books and chapters
For high-throughput screening of genetically modified plant cells, a system for the automatic analysis of huge collections of microscope images is needed to decide whether the cells are infected with fungi or not. To study the potential of feature based classification for this application, we compare different classifiers (kNN, SVM, MLP, LVQ) combined with several feature reduction techniques (PCA, LDA, Mutual Information, Fisher Discriminant Ratio, Recursive Feature Elimination). We achieve a significantly higher classification accuracy using a reduced feature vector instead of the full length feature vector.
Publications
Summary: We present a method for automatic test case generation for protein–protein docking. A consensus-type approach is proposed processing the whole PDB and classifying protein structures into complexes and unbound proteins by combining information from three different approaches (current PDB-at-a-glance classification, search of complexes by sequence identical unbound structures and chain naming). Out of this classification test cases are generated automatically. All calculations were run on the database. The information stored is available via a web interface. The user can choose several criteria for generating his own subset out of our test cases, e.g. for testing docking algorithms.Availability:http://bibiserv.techfak.uni-bielefeld.de/agt-sdp/
This page was last modified on 27 Jan 2025 27 Jan 2025 .