Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets

Sommer B, Kormeier B, Demenkov PS, Arrigo P, Hippe K, Ates Ö, Kochetov AV, Ivanisenko VA, Kolchanov NA, Hofestädt R (2013)
Journal of Bioinformatics and Computational Biology 11(01): 1340005.

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Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Abstract / Bemerkung
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.
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Journal of Bioinformatics and Computational Biology
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11
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01
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1340005
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Sommer B, Kormeier B, Demenkov PS, et al. Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets. Journal of Bioinformatics and Computational Biology. 2013;11(01):1340005.
Sommer, B., Kormeier, B., Demenkov, P. S., Arrigo, P., Hippe, K., Ates, Ö., Kochetov, A. V., et al. (2013). Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets. Journal of Bioinformatics and Computational Biology, 11(01), 1340005. doi:10.1142/S0219720013400052
Sommer, B., Kormeier, B., Demenkov, P. S., Arrigo, P., Hippe, K., Ates, Ö., Kochetov, A. V., Ivanisenko, V. A., Kolchanov, N. A., and Hofestädt, R. (2013). Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets. Journal of Bioinformatics and Computational Biology 11, 1340005.
Sommer, B., et al., 2013. Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets. Journal of Bioinformatics and Computational Biology, 11(01), p 1340005.
B. Sommer, et al., “Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets”, Journal of Bioinformatics and Computational Biology, vol. 11, 2013, pp. 1340005.
Sommer, B., Kormeier, B., Demenkov, P.S., Arrigo, P., Hippe, K., Ates, Ö., Kochetov, A.V., Ivanisenko, V.A., Kolchanov, N.A., Hofestädt, R.: Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets. Journal of Bioinformatics and Computational Biology. 11, 1340005 (2013).
Sommer, Björn, Kormeier, Benjamin, Demenkov, Pavel S., Arrigo, Patrizio, Hippe, Klaus, Ates, Özgür, Kochetov, Alexey V., Ivanisenko, Vladimir A., Kolchanov, Nikolay A., and Hofestädt, Ralf. “Subcellular localization charts: a new visual methodology for the semi-automatic localization of protein-related data sets”. Journal of Bioinformatics and Computational Biology 11.01 (2013): 1340005.

4 Zitationen in Europe PMC

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INTRODUCTORY NOTE FOR BGRS-2012 SPECIAL ISSUE.
Kolchanov NA, Orlov YL., J Bioinform Comput Biol 11(1), 2013
PMID: 28847203

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