Selected Publications

Fröhlich H, Beißbarth T, Tresch A, Kostka D, Jacob J, Spang R, Markowetz F. Analyzing gene perturbation screens with nested effects models in R and bioconductor. Bioinformatics 2008; epub ahead of print. PubMed

Tresch A, Markowetz F. Structure learning in nested effects models. Stat Appl Genet Mol Biol 2008; 7: Article 9. PubMed

Markowetz F, Kostka D, Troyanskaya O, Spang R. Nested effects models for high-dimensional phenotyping screens. Bioinformatics 2007; 23(13): i305-312. PubMed

Markowetz F, Troyanskaya OG. Computational identification of cellular networks and pathways. Mol Biosyst 2007; 3(7): 478-482. PubMed

Markowetz F, Spang R. Inferring cellular networks - a review. BMC Bioinformatics 2007; 8 (Suppl 6): S5. PubMed

Markowetz F, Bloch J, Spang R. Non-transcriptional pathway features reconstructed from secondary effects of RNA interference. Bioinformatics 2005; 21(21): 4026-4032. PubMed

Markowetz F, Grossmann S and Spang R. Probabilistic soft interventions in conditional Gaussian networks. In: R Cowell and Z Ghahramani (eds.), Proc Tenth International Workshop on Artificial Intelligence and Statistics (AISTATS'05); 2005.

Markowetz F and Spang R. Molecular diagnosis: classification, model selection, and performance evaluation. Methods Inf Med 2005; 44(3): 438-443. PubMed

Markowetz F, Edler L and Vingron M. Support vector machines for protein fold class prediction. Biometrical Journal 2003; 45(3): 377-389. Abstract

Birck R, Krzossok S, Markowetz F, Schnülle P, van der Woude FJ and Braun C. Acetylcysteine for prevention of contrast nephropathy: meta-analysis. Lancet 2003; 362(9384): 598-603. PubMed

Markowetz F and Spang R. Evaluating the effect of perturbations in reconstructing network topologies. In: K Hornik, F Leisch and A Zeileis (eds.), Proc Third International Workshop on Distributed Statistical Computing (DSC'03); 2003

Markowetz F and von Heydebreck A. Class discovery in gene expression data: characterizing splits by support vector machines. In: M Schader, W Gaul, M Vichi (eds.), Proc. 26th Annual Conference of the Gesellschaft fur Klassifikation e V (GfKl'02); 2002

Book chapters

Lottaz C, Kostka D, Markowetz F, Spang R. Computational diagnostics with gene expression profiles. In: J Keith (ed.), Methods in Molecular Biology: Bioinformatics. Humana Press, 2007. PubMed

Spang R and Markowetz F. Computational diagnostics. In: Ganten and Ruckpaul (eds.), Encyclopedic Reference of Genomics and Proteomics in Molecular Medicine. Springer, 2006