Michael Stumpf

Parameter inference in dynamical systems with co-dimension 1 bifurcations

Elisabeth Roesch, Michael PH Stumpf

Journal article  |  2019  |  Royal Society Open Science

Dynamical systems with intricate behaviour are all-pervasive in biology. Many of the most interesting biological processes indicat..

Parametric and non-parametric gradient matching for network inference: a comparison.

Leander Dony, Fei He, Michael PH Stumpf

Journal article  |  2019  |  BMC Bioinformatics

BACKGROUND: Reverse engineering of gene regulatory networks from time series gene-expression data is a challenging problem, not on..

An information-theoretic framework for deciphering pleiotropic and noisy biochemical signaling.

Tomasz Jetka, Karol Nienałtowski, Sarah Filippi, Michael PH Stumpf, Michał Komorowski

Journal article  |  2018  |  Nature Communications

Many components of signaling pathways are functionally pleiotropic, and signaling responses are marked with substantial cell-to-ce..

Transition state characteristics during cell differentiation.

Rowan D Brackston, Eszter Lakatos, Michael PH Stumpf

Journal article  |  2018  |  PLOS Computational Biology

Models describing the process of stem-cell differentiation are plentiful, and may offer insights into the underlying mechanisms an..

Single Cell Phenotyping Reveals Heterogeneity Among Hematopoietic Stem Cells Following Infection.

Adam L MacLean, Maia A Smith, Juliane Liepe, Aaron Sim, Reema Khorshed, Narges M Rashidi, Nico Scherf, Axel Krinner, Ingo Roeder, Cristina Lo Celso, Michael PH Stumpf

Journal article  |  2017  |  STEM CELLS

The hematopoietic stem cell (HSC) niche provides essential microenvironmental cues for the production and maintenance of HSCs with..

Control mechanisms for stochastic biochemical systems via computation of reachable sets

Eszter Lakatos, Michael PH Stumpf

Journal article  |  2017  |  Royal Society Open Science

How to deal with parameters for whole-cell modelling

Ann C Babtie, Michael PH Stumpf

Journal article  |  2017  |  Journal of The Royal Society Interface

Quantitative time-resolved analysis reveals intricate, differential regulation of standard- and immuno-proteasomes.

Juliane Liepe, Hermann-Georg Holzhütter, Elena Bellavista, Peter M Kloetzel, Michael PH Stumpf, Michele Mishto

Journal article  |  2015  |  eLife

Proteasomal protein degradation is a key determinant of protein half-life and hence of cellular processes ranging from basic metab..

Quantitative time-resolved analysis reveals intricate, differential regulation of standard- and immuno-proteasomes

J Liepe, HG Holzhütter, E Bellavista, PM Kloetzel, MPH Stumpf, M Mishto

Journal article  |  2015  |  eLife

Extrinsic Noise and Heavy-Tailed Laws in Gene Expression

Lucy Ham, Rowan D Brackston, Michael PH Stumpf

Journal article  |  Physical Review Letters

Multi-Model and Network Inference Based on Ensemble Estimates: Avoiding the Madness of Crowds

Michael PH Stumpf

Journal article

AbstractThe development of mathematical models of biological systems has largely relied on a mix of biological intuition, mathemat..