Univ.-Doz. Dr. Mag. Jacques COLINGE
CeMM – Research Center for Molecular Medicine of the Austrian Academy of Sciences
Email: jcolinge@cemm.oeaw.ac.at
Research Interests
The current areas of research are computational proteomics and interaction network functional analysis, in both cases with application to molecular medicine. Our approach and interest is to reveal signals and structures contained in biological data sets through computational statistics, data integration, and network models. More specifically, the following topics are investigated:
• Quantitative proteomics data analysis;
• Inference of protein complexes from affinity purification mass spectrometry datasets;
• Protein interaction network analysis (applications to innate immunity and cancer);
• Drug-protein interaction analysis, mechanisms of combined therapy synergies;
• Application of interaction network techniques to the analysis of large and noisy sets of genetic lesions as revealed by next generation sequencing approaches.
Computational proteomics and systems biology
Abstract
PhD in mathematics (numerical fluid mechanics), computer science, industrial and academic career in computational biology.
Techniques
Computational statistics, data integration, databases, numerical analysis, R, C++, Java, & Perl programming.
Selected Publications
Pichlmair A, Kandasamy K, Alvisi G, Mulhern O, Sacco R, Habjan M, Binder M, Stefanovic A, Eberle CA, Goncalves A, Bürckstümmer T, Müller A, Fauster A, Holze C, Lindsten K, Goodbourn S, Kochs G, Weber F, Bartenschlager R, Bowie AG, Bennett KL, Colinge J, Superti-Furga G: Viral immune modulators perturb the human molecular network by common and unique strategies, Nature, 2012, 487:486-90.
Stukalov A, Superti-Furga G, Colinge J: Deconvolution of targeted protein-protein interaction maps. J Proteome Res, 2012, 11:4102-9.
Colinge J,* Rix U, Bennett KL, Superti-Furga G: Systems biology analysis of protein-drug interactions. Proteomics Clin Appl 2012, 6(1-2):102-116.
Breitwieser FP, Muller A, Dayon L, Kocher T, Hainard A, Pichler P, Schmidt-Erfurth U, Superti-Furga G, Sanchez JC, Mechtler K, Bennett KL, Colinge J: General Statistical Modeling of Data from Protein Relative Expression Isobaric Tags. J Proteome Res 2011, 10(6):2758-2766.
Pichlmair A, Lassnig C, Eberle CA, Gorna MW, Baumann CL, Burkard TR, Burckstummer T, Stefanovic A, Krieger S, Bennett KL, Rulicke T, Weber F, Colinge J, Muller M, Superti-Furga G: IFIT1 is an antiviral protein that recognizes 5'-triphosphate RNA. Nat Immunol 2011, 12(7):624-630.
Burkard TR, Rix U, Breitwieser FP, Superti-Furga G, Colinge J: A computational approach to analyze the mechanism of action of the kinase inhibitor bafetinib. PLoS Comput Biol 2010, 6(11):e1001001.
Colinge J,* Rix U, Superti-Furga G: Novel global network scores to analyze kinase inhibitor profiles. In: 4th International conference on computational systems biology. Edited by Chen L, Zhang X, Shen B, Wu L, Wang Y, vol. 13. Suzhou, China: World Publishing Company; 2010: 305-313.
Colinge J: Peptide fragment intensity statistical modeling. Anal Chem 2007, 79(19):7286-7290.
Colinge J,* Chiappe D, Lagache S, Moniatte M, Bougueleret L: Differential proteomics via probabilistic peptide identification scores. Anal Chem 2005, 77(2):596-606.
Colinge J,* Masselot A, Giron M, Dessingy T, Magnin J: OLAV: towards high-throughput tandem mass spectrometry data identification. Proteomics 2003, 3(8):1454-1463.