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Ballnus,\ B.\ ; Hug,\ S.\ ; Hatz,\ K.*\ ; Görlitz,\ L.*\ ; Hasenauer,\ J.\ ; Theis,\ F.J.
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Comprehensive benchmarking of Markov chain Monte Carlo methods for dynamical systems.
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BMC Syst. Biol. 11:63 (2017)
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Fiedler,\ A.\ ; Raeth,\ S.*\ ; Theis,\ F.J.\ ; Hausser,\ A.*\ ; Hasenauer,\ J.
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Tailored parameter optimization methods for ordinary differential equation models with steady-state constraints.
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BMC Syst. Biol. 10:80 (2016)
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Kavšček,\ M.*\ ; Bhutada,\ G.*\ ; Madl,\ T.\ ; Natter,\ K.*
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Optimization of lipid production with a genome-scale model of Yarrowia lipolytica.
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BMC Syst. Biol. 9:72 (2015)
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Strasser,\ M.\ ; Feigelman,\ J.\ ; Theis,\ F.J.\ ; Marr,\ C.
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Inference of spatiotemporal effects on cellular state transitions from time-lapse microscopy.
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BMC Syst. Biol. 9:61 (2015)
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Goebels,\ F.*\ ; Frishman,\ D.
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Prediction of protein interaction types based on sequence and network features.
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BMC Syst. Biol. 7:S5 (2013)
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Hock,\ S.\ ; Ng,\ Y.K.\ ; Hasenauer,\ J.\ ; Wittmann,\ D.M.*\ ; Lutter,\ D.\ ; Trümbach,\ D.\ ; Wurst,\ W.\ ; Prakash,\ N.\ ; Theis,\ F.J.
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Sharpening of expression domains induced by transcription and microRNA regulation within a spatio-temporal model of mid-hindbrain boundary formation.
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BMC Syst. Biol. 7:48 (2013)
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Kreutz,\ C.*\ ; Raue,\ A.\ ; Timmer,\ J.*
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Likelihood based observability analysis and confidence intervals for predictions of dynamic models.
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BMC Syst. Biol. 6:120 (2012)
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Schmidl,\ D.\ ; Hug,\ S.\ ; Li,\ W.B.\ ; Greiter,\ M.\ ; Theis,\ F.J.
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Bayesian model selection validates a biokinetic model for zirconium processing in humans.
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BMC Syst. Biol. 6:95 (2012)
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Krumsiek,\ J.\ ; Suhre,\ K.\ ; Illig,\ T.\ ; Adamski,\ J.\ ; Theis,\ F.J.
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Gaussian graphical modeling reconstructs pathway reactions from high-throughput metabolomics data.
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BMC Syst. Biol. 5:21 (2011)
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Sass,\ S.\ ; Dietmann,\ S.\ ; Burk,\ U.C.*\ ; Brabletz,\ S.*\ ; Lutter,\ D.\ ; Kowarsch,\ A.\ ; Mayer,\ K.F.X.\ ; Brabletz,\ T.*\ ; Ruepp,\ A.\ ; Theis,\ F.J.\ ; Wang,\ Y.
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MicroRNAs coordinately regulate protein complexes.
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BMC Syst. Biol. 5:136 (2011)
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Radrich,\ K.\ ; Tsuruoka,\ Y.*\ ; Dobson,\ P.*\ ; Gevorgyan,\ A.*\ ; Swainston,\ N.*\ ; Baart,\ G.*\ ; Schwartz,\ J.M.*
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Integration of metabolic databases for the reconstruction of genome-scale metabolic networks.
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BMC Syst. Biol. 4:114 (2010)
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Trümbach,\ D.\ ; Graf,\ C.*\ ; Pütz,\ B.*\ ; Kühne,\ C.*\ ; Panhuysen,\ M.*\ ; Weber,\ P.*\ ; Holsboer,\ F.*\ ; Wurst,\ W.\ ; Welzl,\ G.\ ; Deussing,\ J.M.*
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Deducing corticotropin-releasing hormone receptor type 1 signaling networks from gene expression data by usage of genetic algorithms and graphical Gaussian models.
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BMC Syst. Biol. 4:159 (2010)
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Wittmann,\ D.M.\ ; Krumsiek,\ J.\ ; Saez-Rodriguez,\ J.*\ ; Lauffenburg,\ D.A.*\ ; Klam,\ S.*\ ; Theis,\ F.J.
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Transforming Boolean models to continuous models: Methodology and application to T-cell receptor signaling.
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BMC Syst. Biol. 3, 98:98 (2009)
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Marr,\ C.\ ; Geertz,\ M.*\ ; Hütt,\ M.-T.*\ ; Muskhelisvili,\ G.*
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Dissecting the logical types of network control in gene expression profiles.
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BMC Syst. Biol. 2:18 (2008)
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