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Bridging the gaps in systems biology.
Cvijovic M, Almquist J, Hagmar J, Hohmann S, Kaltenbach HM, Klipp E, Krantz M, Mendes P, Nelander S, Nielsen J, Pagnani A, Przulj N, Raue A, Stelling J, Stoma S, Tobin F, Wodke JA, Zecchina R, Jirstrand M. Cvijovic M, et al. Among authors: raue a. Mol Genet Genomics. 2014 Oct;289(5):727-34. doi: 10.1007/s00438-014-0843-3. Epub 2014 Apr 13. Mol Genet Genomics. 2014. PMID: 24728588 Review.
Comparison of approaches for parameter identifiability analysis of biological systems.
Raue A, Karlsson J, Saccomani MP, Jirstrand M, Timmer J. Raue A, et al. Bioinformatics. 2014 May 15;30(10):1440-8. doi: 10.1093/bioinformatics/btu006. Epub 2014 Jan 23. Bioinformatics. 2014. PMID: 24463185
In this setting, the model parameters may not be uniquely determinable. Structural or a priori identifiability is a property of the system equations that indicates whether, in principle, the unknown model parameters can be determined from the available data. RESULTS …
In this setting, the model parameters may not be uniquely determinable. Structural or a priori identifiability is a property o …
Lessons learned from quantitative dynamical modeling in systems biology.
Raue A, Schilling M, Bachmann J, Matteson A, Schelker M, Kaschek D, Hug S, Kreutz C, Harms BD, Theis FJ, Klingmüller U, Timmer J. Raue A, et al. PLoS One. 2013 Sep 30;8(9):e74335. doi: 10.1371/journal.pone.0074335. eCollection 2013. PLoS One. 2013. PMID: 24098642 Free PMC article.
Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems.
Raue A, Steiert B, Schelker M, Kreutz C, Maiwald T, Hass H, Vanlier J, Tönsing C, Adlung L, Engesser R, Mader W, Heinemann T, Hasenauer J, Schilling M, Höfer T, Klipp E, Theis F, Klingmüller U, Schöberl B, Timmer J. Raue A, et al. Bioinformatics. 2015 Nov 1;31(21):3558-60. doi: 10.1093/bioinformatics/btv405. Epub 2015 Jul 3. Bioinformatics. 2015. PMID: 26142188
We present a modeling environment for MATLAB that pioneers these challenges. The numerically expensive parts of the calculations such as the solving of the differential equations and of the associated sensitivity system are parallelized and automatically compiled into effi …
We present a modeling environment for MATLAB that pioneers these challenges. The numerically expensive parts of the calculations such …
Profile likelihood in systems biology.
Kreutz C, Raue A, Kaschek D, Timmer J. Kreutz C, et al. Among authors: raue a. FEBS J. 2013 Jun;280(11):2564-71. doi: 10.1111/febs.12276. Epub 2013 May 9. FEBS J. 2013. PMID: 23581573 Free article. Review.
37 results