Publications of 2013

201327 publications

1. High-dimensional Bayesian parameter estimation: Case study for a model of JAK2/STAT5 signaling

   S. Hug, A. Raue, J. Hasenauer, J. Bachmann, U. Klingmüller, J. Timmer, F.J. Theis

   Mathematical BiosciencesOpen accessDOI
   Topic: Mechanistic modelling

2. Dependent component analysis

   Ercan E Kuruoglu, Fabian J Theis

   EURASIP Journal on Advances in Signal ProcessingOpen accessDOI
   Topic: Component analysis and signal separation

3. A strategy to find gene combinations that identify children who progress rapidly to type 1 diabetes after islet autoantibody seroconversion

   Ezio Bonifacio, Jan Krumsiek, Christiane Winkler, Fabian J. Theis, Anette-Gabriele Ziegler

   Acta DiabetologicaDOI
   Topic: Metabolism and diabetes

4. iVUN: interactive Visualization of Uncertain biochemical reaction Networks

   Corinna Vehlow, Jan Hasenauer, Andrei Kramer, …, Fabian J Theis, Daniel Weiskopf

   BMC BioinformaticsOpen accessDOIPDF
   Topic: Mechanistic modelling

5. An automatic method for robust and fast cell detection in bright field images from high-throughput microscopy

   Felix Buggenthin, Carsten Marr, Michael Schwarzfischer, Philipp S Hoppe, Oliver Hilsenbeck, Timm Schroeder, Fabian J Theis

   BMC BioinformaticsOpen accessDOIPDF
   Topic: Imaging

6. Wound-healing growth factor, basic FGF, induces Erk1/2-dependent mechanical hyperalgesia

   Christine Andres, Jan Hasenauer, Hye-Sook Ahn, …, Fabian J. Theis, …, Tim Hucho

   PainDOI
   Topic: Brain and mental health

7. Lessons Learned from Quantitative Dynamical Modeling in Systems Biology

   Andreas Raue, Marcel Schilling, Julie Bachmann, …, Fabian J. Theis, …, Jens Timmer

   PLoS ONEOpen accessDOIPDF
   Topic: Mechanistic modelling

8. A modular framework for gene set analysis integrating multilevel omics data

   Steffen Sass, Florian Buettner, Nikola S. Mueller, Fabian J. Theis

   Nucleic Acids ResearchOpen accessDOIPDF
   Topic: Data integration

9. Method of conditional moments (MCM) for the Chemical Master Equation

   J. Hasenauer, V. Wolf, A. Kazeroonian, F. J. Theis

   Journal of Mathematical BiologyDOI
   Topic: Mechanistic modelling

10. Extrinsically regulated Gadd45γ balances hematopoietic stem cell self-renewal and differentiation

    Frederic Thalheimer, Susanne Wingert, Pangrzio De Giacomo, Andreas Kowarsch, Fabian Theis, Lothar Hennighausen, Timm Schroeder, Michael Rieger

    Experimental HematologyOpen accessDOI
    Topic: Cell fate and dynamics

11. The cytokine-induced microrna193b modulates ckit expression and STAT5 signaling

    Nadine Haetscher, Yonatan Feuermann, Susanne Wingert, …, Fabian Theis, …, Lothar Hennighausen

    Experimental HematologyOpen accessDOI
    Topic: Gene regulation

12. Myeloid lineage choice is not controlled by the PU.1 - Gata1 switch

    Philipp Hoppe, Michael Schwarzfischer, Claus Nerlov, Fabian Theis, Timm Schroeder

    Experimental HematologyOpen accessDOI
    Topic: Cell fate and dynamics

13. Metabolomic profiles in individuals with negative affectivity and social inhibition: A population-based study of Type D personality

    Elisabeth Altmaier, Rebecca T. Emeny, Jan Krumsiek, …, Fabian Theis, …, Karl-Heinz Ladwig

    PsychoneuroendocrinologyDOI
    Topic: Bulk omics and genetics

14. Modeling of 2D diffusion processes based on microscopy data: parameter estimation and practical identifiability analysis

    Sabrina Hock, Jan Hasenauer, Fabian J Theis

    BMC BioinformaticsOpen accessDOIPDF
    Topic: Mechanistic modelling

15. Metabolite profiling reveals new insights into the regulation of serum urate in humans

    Eva Albrecht, Melanie Waldenberger, Jan Krumsiek, …, Fabian J. Theis, …, Christa Meisinger

    MetabolomicsOpen accessDOIPDF
    Topic: Metabolism and diabetes

16. The human transcriptome is enriched for miRNA-binding sites located in cooperativity-permitting distance

    Andrea Rinck, Martin Preusse, Bernhard Laggerbauer, Heiko Lickert, Stefan Engelhardt, Fabian J. Theis

    RNA BiologyOpen accessDOIPDF
    Topic: Gene regulation

17. Sharpening of expression domains induced by transcription and microRNA regulationwithin a spatio-temporal model of mid-hindbrain boundary formation

    Sabrina Hock, Yen-Kar Ng, Jan Hasenauer, …, Fabian J Theis

    BMC Systems BiologyOpen accessDOIPDF
    Topic: Gene regulation

18. Live imaging of astrocyte responses to acute injury reveals selective juxtavascular proliferation

    Sophia Bardehle, Martin Krüger, Felix Buggenthin, …, Fabian J Theis, …, Magdalena Götz

    Nature NeuroscienceDOI
    Topic: Imaging

19. Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis

    Victoria Moignard, Iain C. Macaulay, Gemma Swiers, …, Fabian J. Theis, …, Berthold Göttgens

    Nature Cell BiologyOpen accessDOIPDF
    Topic: Gene regulation

20. Effects of smoking and smoking cessation on human serum metabolite profile: results from the KORA cohort study

    Tao Xu, Christina Holzapfel, Xiao Dong, …, Fabian Theis, …, Rui Wang-Sattler

    BMC MedicineOpen accessDOIPDF
    Topic: Bulk omics and genetics

21. A Vine-copula Based Adaptive MCMC Sampler for Efficient Inference of Dynamical Systems

    Daniel Schmidl, Claudia Czado, Sabine Hug, Fabian J. Theis

    Bayesian AnalysisOpen accessDOI
    Topic: Statistical inference

22. Rejoinder

    Daniel Schmidl, Claudia Czado, Sabine Hug, Fabian J. Theis

    Bayesian AnalysisOpen accessDOI
    Topic: Statistical inference

23. Integrative genetic and metabolite profiling analysis suggests altered phosphatidylcholine metabolism in asthma

    J. S. Ried, H. Baurecht, F. Stückler, …, F. J. Theis, …, S. Weidinger

    AllergyDOI
    Topic: Bulk omics and genetics

24. Joining forces of Bayesian and frequentist methodology: a study for inference in the presence of non-identifiability

    Andreas Raue, Clemens Kreutz, Fabian Joachim Theis, Jens Timmer

    Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering SciencesOpen accessDOIPDF
    Topic: Statistical inference

25. Visualizing edge-edge relations in graphs

    Corinna Vehlow, Jan Hasenauer, Fabian J. Theis, Daniel Weiskopf

    2013 IEEE Pacific Visualization Symposium (PacificVis)Conference paperDOI
    Topic: Networks and graphs

26. Truth-Content and Phase Transitions of Random Boolean Networks with Generic Logics

    Dominik M. Wittmann, Sabrina Hock, Fabian J. Theis

    SIAM Journal on Applied Dynamical SystemsDOI
    Topic: Networks and graphs

27. STATISTICAL METHODS FOR THE ANALYSIS OF HIGH-THROUGHPUT METABOLOMICS DATA

    Jörg Bartel, Jan Krumsiek, Fabian J. Theis

    Computational and Structural Biotechnology JournalReviewOpen accessDOIPDF
    Topic: Component analysis and signal separation