Jan Krumsiek
PhD student
Dipl. Bioinf
Email me
Tel.: +49 (0) 89 3187 3641
Room: 136b
Research
- Modeling of metabolic networks based on metabolomics data
- Modeling of hematopoietic stem cell differentiation
- Quantifying discrete models of biological systems
- Odefy
Previous work
- Gepard - a rapid dotplot software for plots on genome scale (Link)
- SIMAP - the similarity matrix of proteins (Link)
- Protein interactions and complex prediction at at LFE Bioinformatik, IFI, LMU Munich (2006-2008, Link)
- Neural mechanisms of eye movement at the Bernstein Center for Computational Neuroscience - Munich (2007-2008)
Publications
- Wittmann DM, Krumsiek J, Saez-Rodriguez J, Lauffenburger DA, Klamt S, Theis FJ. Transforming Boolean Models to Continuous Models: Methodology and Application to T-Cell Receptor Signaling. BMC Syst Biol. 2009 Sep 28;3:98. [PubMed]
- Friedel CC, Krumsiek J, Zimmer R. Bootstrapping the Interactome: Unsupervised Identification of Protein Complexes in Yeast. Journal of Computational Biology. 2009, 16(8), 971-8. [PubMed]
- Krumsiek J, Friedel CC, Zimmer R. ProCope - Protein Complex Prediction and Evaluation. Bioinformatics. 2008, 24, 2115-6. [PubMed]
- Friedel CC, Krumsiek J, Zimmer R. Bootstrapping the interactome: unsupervised identification of protein complexes in yeast. 2th Annual International Conference on Research in Molecular Biology RECOMB 2008. [PDF]
- Rattei T, Tischler P, Arnold R, Hamberger F, Krebs J, Krumsiek J, Wachinger B, Stuempflen V, Mewes HW. SIMAP - structuring the network of protein similarities. Nucleic Acids Res. 2007 , 36 (Database issue), D289-92. [PubMed, PDF]
- Krumsiek J, Arnold R, Rattei T. Gepard: A rapid and sensitive tool for creating dotplots on genome scale. Bioinformatics. 2007, 24. 1026-8. [PubMed]
Conference contributions
- D.M. Wittmann, J. Krumsiek, F. Blöchl, S. Klamt, and F.J. Theis. Mind the Gap: From Boolean to Continuous Models. Status Seminar of the Helmholtz Alliance on Systems Biology, Potsdam [Poster PDF]
- J. Krumsiek, D.M. Wittmann, S. Klamt, and F.J. Theis. Odefy - From discrete to continuous models in MATLAB. Status Seminar of the Helmholtz Alliance on Systems Biology, Potsdam [Poster PDF]