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Article

Aiche, S. and Reinert, K. and Schütte, Ch. and Hildebrand, D. and Schlüter, H. and Conrad, T. O. F. (2012) Inferring Proteolytic Processes from Mass Spectrometry Time Series Data Using Degradation Graphs. PLoS ONE, 7 (7). e40656. ISSN 1932-6203

Ayaz, Cihan and Scalfi, Laura and Dalton, Benjamin and Netz, Roland R. (2022) Generalized Langevin equation with a nonlinear potential of mean force and nonlinear memory friction from a hybrid projection scheme. PHYSICAL REVIEW E, 105 . pp. 1-19.

Banisch, Ralf and Koltai, Péter (2017) Understanding the geometry of transport: diffusion maps for Lagrangian trajectory data unravel coherent sets. Chaos: An Interdisciplinary Journal of Nonlinear Science, 23 (23). ISSN 1054-1500 (print); 1089-7682 (online) (Submitted)

Delle Site, L. (2014) What is a Multiscale Problem in Molecular Dynamics? Entropy (Special Issue), 16 (1). pp. 23-40. ISSN 1099-4300

Djurdjevac, N. and Weber, M. and Schütte, Ch. (2016) Finding dominant structures of nonreversible Markov processes. Multiscale Modeling and Simulation: A SIAM Interdisciplinary Journal, 14 (4). pp. 1319-1340. ISSN 1540-3459

Djurdjevac, N. and Helfmann, L. and Zonker, J. and Winkelmann, S. and Schütte, Ch. (2018) Human mobility and innovation spreading in ancient times: a stochastic agent-based simulation approach. EPJ Data Science, 7 (1). p. 24.

Dommert, F. and Wendler, K. and Qiao, B. and Delle Site, L. (2014) Generic force fields for ionic liquids. Journal of Molecular Liquids, 192 . pp. 32-37. ISSN 0167-7322

Gul, Rahim and Bernhard, S. (2015) Parametric uncertainty and global sensitivity analysis in a model of the carotid bifurcation: Identification and ranking of most sensitive model parameters. Mathematical Biosciences, 269 . pp. 104-116. ISSN 0025-5564

Jojić, Vida and Čabrilo, Borislav and Bjelić-Čabrilo, Olivera and Jovanović, Vladimir M. and Budinski, Ivana and Vujošević, Mladen and Blagojević, Jelena (2021) Canalization and developmental stability of the yellow-necked mouse (Apodemus flavicollis) mandible and cranium related to age and nematode parasitism. Frontiers in Zoology, 18 (1). ISSN 1742-9994

Jovanovic, Vladimir M. and Sarfert, Melanie and Reyna-Blanco, Carlos S. and Indrischek, Henrike and Valdivia, Dulce I. and Shelest, Ekaterina and Nowick, Katja (2021) Positive Selection in Gene Regulatory Factors Suggests Adaptive Pleiotropic Changes During Human Evolution. Frontiers in Genetics, 12 . ISSN 1664-8021

Katchanov, J. and von Kleist, M. and Arasteh, K. and Stocker, H. (2014) “Time-to-Amphotericin B” in Cryptococcal Meningitis in a European Low-Prevalence Setting: Analysis of Diagnostic Delays. QJM: An International Journal of Medicine, 107 (10). pp. 799-803. ISSN 1460-2393

Kryven, I. and Röblitz, S. and Schütte, Ch. (2015) Solution of the chemical master equation by radial basis functions approximation with interface tracking. BMC Systems Biology, 9 (67). ISSN 1752-0509

Kurbalija Novičić, Zorana and Bodén, Robert and Kozarski, Ksenija and Jelić, Mihailo and Jovanović, Vladimir M. and Cunningham, Janet L. (2021) Lithium influences whole‐organism metabolic rate in Drosophila subobscura. Journal of Neuroscience Research, 99 (1). pp. 407-418. ISSN 0360-4012

Paulus, F. and Weiss, M. E. R. and Steinhilber, D. and Nikitin, A. and Schütte, Ch. and Haag, R. (2013) Anionic Ring-Opening Polymerization Simulations for Hyperbranched Polyglycerols with Defined Molecular Weights. Macromolecules, 46 (21). pp. 8458-8466. ISSN 0024-9297

Plattner, N. and Doll, J. D. and Meuwly, M. (2013) Overcoming the Rare Event Sampling Problem in Biological Systems with Infinite Swapping. Journal of Chemical Theory and Computation, 9 (9). pp. 4215-4224. ISSN 1549-9618

Wang, H. and Agarwal, A. (2015) Adaptive resolution simulation in equilibrium and beyond. The European Physical Journal Special Topics, 224 (12). pp. 2269-2287. ISSN 1951-6355

Wang, H. and Agarwal, A. (2015) Reply to comment by R. Klein on “Adaptive resolution simulation in equilibrium and beyond”. The European Physical Journal Special Topics, 224 (12). pp. 2501-2502. ISSN 1951-6355

Book Section

Bach, V. and Delle Site, L. (2014) On Some Open Problems in Many-Electron Theory. In: Many-Electron Approaches in Physics, Chemistry and Mathematics: A Multidisciplinary View. Mathematical Physics Studies . Springer, pp. 413-417. ISBN 978-3-319-06378-2

Conrad, T. O. F. and Reinert, K. and Kohlbacher, O. (2008) Bioinformatics Support for Mass Spectrometry Quality Control. In: Proteomics Sample Preparation. Wiley-Vch, p. 485.

Delle Site, L. (2014) Levy-Lieb Principle meets Quantum Monte Carlo. In: Many-Electron Approaches in Physics, Chemistry and Mathematics: A Multidisciplinary View. Mathematical Physics Studies . Springer, pp. 361-375. ISBN 978-3-319-06378-2

Conference or Workshop Item

von Klinski, S. and Derz, C. and Weese, D. and Tolxdorff, T. (2000) Model-based image processing using snakes and mutual information. In: Society of Photo-Optical Instrumentation Engineers (SPIE).

Thesis

Love, Michael I. (2013) Statistical analysis of high-throughput sequencing count data. PhD thesis, Freie Universität Berlin.

Rodrigues de Melo Costa, Verônica (2021) Genome-wide Determination Of Splicing Efficiency And Dynamics From RNA-Seq Data. PhD thesis, Freie Universität Berlin.