Jan Hasenauer
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Characterization of rare, dormant, and therapy-resistant cells in acute lymphoblastic leukemia
S Ebinger, EZ Özdemir, C Ziegenhain, S Tiedt, CC Alves, M Grunert, ...
Cancer Cell 30 (6), 849-862, 2016
Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems
A Raue, B Steiert, M Schelker, C Kreutz, T Maiwald, H Hass, J Vanlier, ...
Bioinformatics 31 (21), 3558-3560, 2015
Network plasticity of pluripotency transcription factors in embryonic stem cells
A Filipczyk, C Marr, S Hastreiter, J Feigelman, M Schwarzfischer, ...
Nature Cell Biology 17 (10), 1235-1246, 2015
COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms
M Ostaszewski, A Mazein, ME Gillespie, I Kuperstein, A Niarakis, ...
Scientific Data 7 (1), 1-4, 2020
Scalable parameter estimation for genome-scale biochemical reaction networks
F Fröhlich, B Kaltenbacher, FJ Theis, J Hasenauer
PLoS Computational Biology 13 (1), e1005331, 2017
Benchmarking optimization methods for parameter estimation in large kinetic models
AF Villaverde, F Fröhlich, D Weindl, J Hasenauer, JR Banga
Bioinformatics 35 (5), 830-838, 2019
Method of conditional moments (MCM) for the chemical master equation
J Hasenauer, V Wolf, A Kazeroonian, FJ Theis
Journal of Mathematical biology 69 (3), 687-735, 2014
Efficient parameter estimation enables the prediction of drug response using a mechanistic pan-cancer pathway model
F Fröhlich, T Kessler, D Weindl, A Shadrin, L Schmiester, H Hache, ...
Cell Systems 7 (6), 567-579. e6, 2018
Determinants of robustness in spindle assembly checkpoint signalling
S Heinrich, EM Geissen, J Kamenz, S Trautmann, C Widmer, P Drewe, ...
Nature Cell Biology 15 (11), 1328-1339, 2013
Identification of models of heterogeneous cell populations from population snapshot data
J Hasenauer, S Waldherr, M Doszczak, N Radde, P Scheurich, F Allgöwer
BMC Bioinformatics 12 (1), 1-15, 2011
Inferring population dynamics from single-cell RNA-sequencing time series data
DS Fischer, AK Fiedler, EM Kernfeld, RMJ Genga, A Bastidas-Ponce, ...
Nature Biotechnology 37 (4), 461-468, 2019
PESTO: Parameter EStimation TOolbox
P Stapor, D Weindl, B Ballnus, S Hug, C Loos, A Fiedler, S Krause, ...
Bioinformatics 34 (4), 705-707, 2018
GenSSI 2.0: multi-experiment structural identifiability analysis of SBML models
TS Ligon, F Fröhlich, OT Chiş, JR Banga, E Balsa-Canto, J Hasenauer
Bioinformatics 34 (8), 1421-1423, 2018
pyABC: distributed, likelihood-free inference
E Klinger, D Rickert, J Hasenauer
Bioinformatics 34 (20), 3591-3593, 2018
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, ...
Mathematical Biosciences 246 (2), 293-304, 2013
COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms
M Ostaszewski, A Niarakis, A Mazein, I Kuperstein, R Phair, ...
Molecular systems biology 17 (10), e10387, 2021
Inference for stochastic chemical kinetics using moment equations and system size expansion
F Fröhlich, P Thomas, A Kazeroonian, FJ Theis, R Grima, J Hasenauer
PLoS Computational Biology 12 (7), e1005030, 2016
Parallelization and high-performance computing enables automated statistical inference of multi-scale models
N Jagiella, D Rickert, FJ Theis, J Hasenauer
Cell systems 4 (2), 194-206. e9, 2017
Whither systems medicine?
R Apweiler, T Beissbarth, MR Berthold, N Blüthgen, Y Burmeister, ...
Experimental & Molecular Medicine 50 (3), e453-e453, 2018
Benchmark problems for dynamic modeling of intracellular processes
H Hass, C Loos, E Raimundez-Alvarez, J Timmer, J Hasenauer, C Kreutz
Bioinformatics 35 (17), 3073-3082, 2019
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Articles 1–20