Goal
Our goal is to model mammalian cell decisions on multiple scales. Following a data-driven approach, we integrate information from large-scale omics data to small-scale single-cell time series. To that end, we develop methods for the biostatistical description of molecular networks, image processing, stochastic system dynamics and parameter inference.
News
- Recently, we successfully contributed a Gaussian Process Latent Variable Model to Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis
- We successfully contributed a genetics-PPI integration to Genome-wide Association analyses identify 18 new loci associated with serum urate concentrations
- The website of the MIMOmics project just went online.
- We welcome our newest group members Silvia Colicino and Thomas Blasi.
- We collected 177 Euro for our CMB-Movember-Team. Congratulations to the CMB MoBro of the Year Ferdi!
- We successfully contributed to a strategy for combining minor genetic susceptibility genes to improve prediction of disease in type 1 diabetes which got reviewed in Spiegel Online.
- We are a member of the new graduate school QBM in the context of german excellence initiative.
Recently, we received an ERC-starting-grant for modeling latent causes in molecular networks. Please check our open positions if you are interested.
We are happy to announce the release of Applications of MATLAB in Science and Engineering The chapter From Discrete to Continuous Gene Regulation Models – A Tutorial Using the Odefy Toolbox has been written by Jan Krumsiek, Dominik M. Wittmann and Fabian J. Theis
Our recent publications
| [1] | M. Konrad, M. Vyleta, F. Theis, M. Stock, S. Tragust, M. Klatt, V. Drescher, C. Marr, L. Ugelvig and S. Cremer. Social Transfer of Pathogenic Fungus Promotes Active Immunisation in Ant Colonies. PLoS Biology, 10(4):e1001300, 2012. 10.1371/journal.pbio.1001300. [ DOI ] |
| [2] | S. Krug, G. Kastenmüller, F. Stückler, M. Rist, T. Skurk, M. Sailer, J. Raffler, W. Römisch-Margl, J. Adamski, C. Prehn, T. Frank, K. Engel, T. Hofmann, B. Luy, R. Zimmermann, F. Moritz, P. Schmitt-Kopplin, J. Krumsiek, W. Kremer, F. Huber, U. Oeh, F. Theis, W. Szymczak, H. Hauner, K. Suhre and H. Daniel. The dynamic range of the human metabolome revealed by challenges. FASEB J., pages fj.11-198093, 2012. 10.1096/fj.11-198093. [ DOI | PubMed ] |
| [3] | A. Raue, C. Kreutz, F. Theis and J. Timmer. Joining Forces of Bayesian and Frequentist Methodology: A Study for Inference in the Presence of Non-Identifiability. Phil. Trans. Roy. Soc. A, accepted, 2012. |
| [4] | M. Strasser, F. Theis and C. Marr. Stability and multi-attractor dynamics of a gene switch based on a two-stage model of gene expression. Biophysical Journal, 102:19-29, 2012. 10.1016/j.bpj.2011.11.4000. [ DOI ] |
| [5] | I. Laaser, F. Theis, M. H. de Angelis, H. Kolb and J. Adamski. Huge Splicing Frequency in Human Y Chromosomal UTY Gene. OMICS A journal of Integrative Biology, 15(3):141-154, 2011. 10.1089/omi.2010.0107. [ DOI | PubMed | .pdf ] |
| [6] | A. Kowarsch, M. Preusse, C. Marr and F. Theis. miTALOS: analyzing the tissue-specific regulation of signaling pathways by human and mouse microRNAs. RNA, 17(809-819), 2011. 10.1261/rna.2474511. [ DOI | PubMed ] |
| [7] | F. Theis, N. Latif, P. Wong and D. Frishman. Complex principal component and correlation structure of 16 yeast genomic variables. Molecular Biology and Evolution, 28(9):2501-2512, 2011. 10.1093/molbev/msr077. [ DOI | PubMed | .pdf ] |
| [8] | J. Krumsiek, K. Suhre, T. Illig, J. Adamski and F. Theis. Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data. BMC Systems Biology, 5(21), 2011. 10.1186/1752-0509-5-21. [ DOI | PubMed | .pdf ] |
| [9] | F. Theis, S. Bohl and U. Klingmüller. Theoretical analysis of time-to-peak responses in biological reaction networks. Bulletin of Mathematical Biology, 73(5):978-1003, 2011. 10.1007/s11538-010-9548-x. [ DOI | PubMed | .pdf ] |
| [10] | A. Kowarsch, C. Marr, D. Schmidl, A. Ruepp and F. Theis. Tissue-specific target analysis of disease-associated microRNAs in human signaling pathways. PLoS ONE, 5(6):e11154, 2010. 10.1371/journal.pone.0011154. [ DOI | PubMed | .pdf ] |
