title: Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets.
abstract: The CELLmicrocosmos PathwayIntegration (CmPI) was developed to support and visualize the subcellular localization prediction of protein-related data such as protein-interaction networks. From the start it was possible to manually analyze the localizations by using an interactive table. It was, however, quite complicated to compare and analyze the different localization results derived from data integration as well as text-mining-based databases. The current software release provides a new interactive visual workflow, the Subcellular Localization Charts. As an application case, a MUPP1-related protein-protein interaction network is localized and semi-automatically analyzed. It will be shown that the workflow was dramatically improved and simplified. In addition, it is now possible to use custom protein-related data by using the SBML format and get a view of predicted protein localizations mapped onto a virtual cell model.
authors: Bio-/Medical Informatics Department, Bielefeld University, Universitätsstr. 25, Bielefeld 33615, Germany. bjoern@CELLmicrocosmos.org
authors: Björn
authors: B
authors: Sommer
authors: Benjamin
authors: B
authors: Kormeier
authors: Pavel S
authors: PS
authors: Demenkov
authors: Patrizio
authors: P
authors: Arrigo
authors: Klaus
authors: K
authors: Hippe
authors: Özgür
authors: Ö
authors: Ates
authors: Alexey V
authors: AV
authors: Kochetov
authors: Vladimir A
authors: VA
authors: Ivanisenko
authors: Nikolay A
authors: NA
authors: Kolchanov
authors: Ralf
authors: R
authors: Hofestädt
mesh_terms: D003196:Computer Graphics; D003198:Computer Simulation; D030562:Databases, Protein; D021621:Imaging, Three-Dimensional / Q000379:methods*; D008954:Models, Biological; D025941:Protein Interaction Mapping / Q000379:methods*; D020543:Proteome / Q000378:metabolism*; D013347:Subcellular Fractions / Q000378:metabolism*; D014018:Tissue Distribution
chemical_list: D020543:Proteome