From proteomics to systems biology of bacterial pathogens: Approaches, tools, and applications
| Autor: | Uwe Plikat, Gung-Wei Chirn, Bruno Inverardi, Alexandra Ruchti, Joseph D. Szustakowski, Nathalie Brendlen, Brigitte Wiedmann, Piroska Dévay, Dieter Müller, Ron L. Peterson, Urs Wirth, Manuel C. Peitsch, Heather Kamp, Hans Voshol, Yvonne Dangendorf, Xiaoling Puyang, Jennifer Buco, Kara Brown, Sjouke Hoving, Jan van Oostrum |
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| Rok vydání: | 2007 |
| Předmět: |
Proteomics
Staphylococcus aureus Proteome Systems biology Population Genome browser Computational biology Biology Bioinformatics computer.software_genre Biochemistry Bacterial Proteins Sequence Analysis Protein Ensembl Electrophoresis Gel Two-Dimensional education Molecular Biology Oligonucleotide Array Sequence Analysis education.field_of_study Bacteria Systems Biology ComputingMethodologies_PATTERNRECOGNITION User interface computer Software Data integration |
| Zdroj: | PROTEOMICS. 7:992-1003 |
| ISSN: | 1615-9861 1615-9853 |
| Popis: | The hallmark of a systems biology approach is the integration of computational tools with experimental data encompassing multiple classes of biomolecules across different functional levels. Equally important as the availability of reasonably comprehensive information at the gene, protein, and metabolite levels is the development of adequate analysis and visualization tools to reduce the inherent complexity to interpretable dimensions. In this paper, we describe the integration of a 2-D gel-based proteome map of Staphylococcus aureus Mu50 with genomic and transcriptomic information through a customized data integration and user interface built on the Ensembl genome browser. We illustrate its application and potential through the analysis of a defined system perturbation caused by a mutation in the formyltransferase gene. We envision that this software package, which we called Insieme, can support the development of novel antibiotics by allowing a systems-based view of the bacterial response pathways. |
| Databáze: | OpenAIRE |
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