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 | 288 | 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 | 262 | 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 | 156 | 2015 |
Scalable parameter estimation for genome-scale biochemical reaction networks F Fröhlich, B Kaltenbacher, FJ Theis, J Hasenauer PLoS Computational Biology 13 (1), e1005331, 2017 | 153 | 2017 |
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 | 152 | 2020 |
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 | 148 | 2019 |
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 | 144 | 2018 |
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 | 139 | 2014 |
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 | 135 | 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 | 132 | 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 | 115 | 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 | 111 | 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 | 105 | 2018 |
pyABC: distributed, likelihood-free inference E Klinger, D Rickert, J Hasenauer Bioinformatics 34 (20), 3591-3593, 2018 | 102 | 2018 |
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 | 90 | 2021 |
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 | 86 | 2013 |
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 | 84 | 2016 |
PEtab—Interoperable specification of parameter estimation problems in systems biology L Schmiester, Y Schälte, FT Bergmann, T Camba, E Dudkin, J Egert, ... PLoS Computational Biology 17 (1), e1008646, 2021 | 81 | 2021 |
HER2 Expression, Test Deviations, and Their Impact on Survival in Metastatic Gastric Cancer: Results From the Prospective Multicenter VARIANZ Study I Haffner, K Schierle, E Raimúndez, B Geier, D Maier, J Hasenauer, ... Journal of Clinical Oncology, 2021 | 80 | 2021 |
Whither systems medicine? R Apweiler, T Beissbarth, MR Berthold, N Blüthgen, Y Burmeister, ... Experimental & Molecular Medicine 50 (3), e453-e453, 2018 | 80 | 2018 |