SYSCOL
Systems Biology of Colorectal Cancer
The project is coordinated by Prof. Jussi Taipale, Karolinska Institute, Uppsala, Sweden. The 11 participants of the consortium are from 8 European countries, from Israel and the United States.
Contract period: January 1st, 2011 – December 31st, 2015
Contract no. 258236.
Summary:
SYSCOL is a systems biological project that aims at developing a quantitative and comprehensive model of colorectal tumorigenesis, one of the most common cancers in both males and females.
GeneXPlain contributes to the project by developing an integrative tool platform for bioinformatic and systems biological software and databases.
Project description on the CORDIS server of the European Commission
Jussi Taipale’s collection of Positional Weight Matrices, the most comprehensive experimental set available to date (Jolma et al., Cell 153: 327-338, 2013; PMID 23332764), has been consistently linked to E. Wingender’s transcription factor classification.
Publications:
Kel, A., Boyarskikh, U., Stegmaier, P., Leskov, L. S., Sokolov, A. V., Yevshin, I., Mandrik, N., Stelmashenko, D., Koschmann, J., Kel-Margoulis, O., Krull, M., Martínez-Cardús, A., Moran, S., Esteller, M., Kolpakov, F., Filipenko, M. and Wingender, E. (2019) Walking pathways with positive feedback loops reveal DNA methylation biomarkers of colorectal cancer. BMC Bioinformatics 20 (Suppl 4), 119. doi: 0.1186/s12859-019-2687-7 Link
Wingender, E., Schoeps, T., Haubrock, M., Dönitz, J. (2015) TFClass: a classification of human transcription factors and their rodent orthologs. Nucleic Acids Res., in press. doi: 10.1093/nar/gku1064. Link
Wingender, E., Schoeps, T., Dönitz, J. (2013) TFClass: An expandable hierarchical classification of human transcription factors. Nucleic Acids Res. 41, D165-D170. doi: 10.1093/nar/gks1123. Link
