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Authors: Jan Hasenauer
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Journal Article
pyPESTO: a modular and scalable tool for parameter estimation for dynamic models
Yannik Schälte and others
Bioinformatics, Volume 39, Issue 11, November 2023, btad711, https://doi.org/10.1093/bioinformatics/btad711
Published: 23 November 2023
Journal Article
FitMultiCell: simulating and parameterizing computational models of multi-scale and multi-cellular processes
Emad Alamoudi and others
Bioinformatics, Volume 39, Issue 11, November 2023, btad674, https://doi.org/10.1093/bioinformatics/btad674
Published: 08 November 2023
Journal Article
Accessibility of covariance information creates vulnerability in Federated Learning frameworks
Manuel Huth and others
Bioinformatics, Volume 39, Issue 9, September 2023, btad531, https://doi.org/10.1093/bioinformatics/btad531
Published: 30 August 2023
Journal Article
IntestLine: a shiny-based application to map the rolled intestinal tissue onto a line
Altay Yuzeir and others
Bioinformatics, Volume 39, Issue 4, April 2023, btad140, https://doi.org/10.1093/bioinformatics/btad140
Published: 21 March 2023
Journal Article
Efficient gradient-based parameter estimation for dynamic models using qualitative data
Leonard Schmiester and others
Bioinformatics, Volume 37, Issue 23, December 2021, Pages 4493–4500, https://doi.org/10.1093/bioinformatics/btab512
Published: 14 July 2021
Journal Article
SysMod: the ISCB community for data-driven computational modelling and multi-scale analysis of biological systems
Andreas Dräger and others
Bioinformatics, Volume 37, Issue 21, November 2021, Pages 3702–3706, https://doi.org/10.1093/bioinformatics/btab229
Published: 24 June 2021
Journal Article
AMICI: high-performance sensitivity analysis for large ordinary differential equation models
Fabian Fröhlich and others
Bioinformatics, Volume 37, Issue 20, October 2021, Pages 3676–3677, https://doi.org/10.1093/bioinformatics/btab227
Published: 02 April 2021
Journal Article
Efficient exact inference for dynamical systems with noisy measurements using sequential approximate Bayesian computation
Yannik Schälte and Jan Hasenauer
Bioinformatics, Volume 36, Issue Supplement_1, July 2020, Pages i551–i559, https://doi.org/10.1093/bioinformatics/btaa397
Published: 13 July 2020
Journal Article
Efficient parameterization of large-scale dynamic models based on relative measurements
Leonard Schmiester and others
Bioinformatics, Volume 36, Issue 2, January 2020, Pages 594–602, https://doi.org/10.1093/bioinformatics/btz581
Published: 26 July 2019
Journal Article
Benchmark problems for dynamic modeling of intracellular processes
Helge Hass and others
Bioinformatics, Volume 35, Issue 17, September 2019, Pages 3073–3082, https://doi.org/10.1093/bioinformatics/btz020
Published: 08 January 2019
Journal Article
Benchmarking optimization methods for parameter estimation in large kinetic models
Alejandro F Villaverde and others
Bioinformatics, Volume 35, Issue 5, March 2019, Pages 830–838, https://doi.org/10.1093/bioinformatics/bty736
Published: 23 August 2018
Journal Article
Hierarchical optimization for the efficient parametrization of ODE models
Carolin Loos and others
Bioinformatics, Volume 34, Issue 24, December 2018, Pages 4266–4273, https://doi.org/10.1093/bioinformatics/bty514
Published: 13 July 2018
Journal Article
Optimization and profile calculation of ODE models using second order adjoint sensitivity analysis
Paul Stapor and others
Bioinformatics, Volume 34, Issue 13, July 2018, Pages i151–i159, https://doi.org/10.1093/bioinformatics/bty230
Published: 27 June 2018
Journal Article
Bayesian parameter estimation for biochemical reaction networks using region-based adaptive parallel tempering
Benjamin Ballnus and others
Bioinformatics, Volume 34, Issue 13, July 2018, Pages i494–i501, https://doi.org/10.1093/bioinformatics/bty229
Published: 27 June 2018
Journal Article
pyABC: distributed, likelihood-free inference
Emmanuel Klinger and others
Bioinformatics, Volume 34, Issue 20, October 2018, Pages 3591–3593, https://doi.org/10.1093/bioinformatics/bty361
Published: 14 May 2018
Journal Article
GenSSI 2.0: multi-experiment structural identifiability analysis of SBML models
Thomas S Ligon and others
Bioinformatics, Volume 34, Issue 8, April 2018, Pages 1421–1423, https://doi.org/10.1093/bioinformatics/btx735
Published: 30 November 2017
Journal Article
PESTO: Parameter EStimation TOolbox
Paul Stapor and others
Bioinformatics, Volume 34, Issue 4, February 2018, Pages 705–707, https://doi.org/10.1093/bioinformatics/btx676
Published: 23 October 2017
Journal Article
A scalable moment-closure approximation for large-scale biochemical reaction networks
Atefeh Kazeroonian and others
Bioinformatics, Volume 33, Issue 14, July 2017, Pages i293–i300, https://doi.org/10.1093/bioinformatics/btx249
Published: 12 July 2017
Journal Article
Parameter estimation for dynamical systems with discrete events and logical operations
Fabian Fröhlich and others
Bioinformatics, Volume 33, Issue 7, April 2017, Pages 1049–1056, https://doi.org/10.1093/bioinformatics/btw764
Published: 27 December 2016
Journal Article
Robust parameter estimation for dynamical systems from outlier-corrupted data
Corinna Maier and others
Bioinformatics, Volume 33, Issue 5, March 2017, Pages 718–725, https://doi.org/10.1093/bioinformatics/btw703
Published: 13 December 2016
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