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On the accuracy of the epigenetic copy machine: comprehensive specificity analysis of the DNMT1 DNA methyltransferase

Nucleic acids research, 2023-07, Vol.51 (13), p.6622

2023

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Reversible switching and stability of the epigenetic memory system in bacteria

The FEBS journal, 2023-04, Vol.290 (8), p.2115-2126

2023

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DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation

Nature communications, 2020-07, Vol.11 (1), p.3723-3723, Article 3723

2020

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Model‐based robustness and bistability analysis for methylation‐based, epigenetic memory systems

The FEBS journal, 2021-10, Vol.288 (19), p.5692-5707

2021

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Bayesian estimation reveals that reproducible models in Systems Biology get more citations

Scientific reports, 2023-02, Vol.13 (1), p.2695-2695, Article 2695

2023

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The effect of normalisation and error model choice on the distribution of the maximum likelihood estimator for a biochemical reaction

IET systems biology, 2023-02, Vol.17 (1), p.1-13

2023

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Editorial: Computational Modeling for Liver Surgery and Interventions

Frontiers in physiology, 2022-02, Vol.13, p.859522-859522

2022

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Model-Based Design of a Synthetic Oscillator Based on an Epigenetic Methylation Memory System

ACS synthetic biology, 2022-07, Vol.11 (7), p.2445-2455

2022

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Identification of models of heterogeneous cell populations from population snapshot data

BMC bioinformatics, 2011-04, Vol.12 (1), p.125-125, Article 125

2011

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Impact of measurement noise, experimental design, and estimation methods on Modular Response Analysis based network reconstruction

Scientific reports, 2018-11, Vol.8 (1), p.16217-14, Article 16217

2018

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Sampling-based Bayesian approaches reveal the importance of quasi-bistable behavior in cellular decision processes on the example of the MAPK signaling pathway in PC-12 cell lines

BMC systems biology, 2017-01, Vol.11 (1), p.11-11, Article 11

2017

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The tumor suppressor protein DLC1 maintains protein kinase D activity and Golgi secretory function

The Journal of biological chemistry, 2018-09, Vol.293 (37), p.14407-14416

2018

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Periportal steatosis in mice affects distinct parameters of pericentral drug metabolism

Scientific reports, 2022-12, Vol.12 (1), p.21825-19, Article 21825

2022

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Hepatectomy-Induced Alterations in Hepatic Perfusion and Function - Toward Multi-Scale Computational Modeling for a Better Prediction of Post-hepatectomy Liver Function

Frontiers in physiology, 2021-11, Vol.12, p.733868-733868

2021

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Modeling of biocatalytic reactions: A workflow for model calibration, selection, and validation using Bayesian statistics

AIChE journal, 2020-04, Vol.66 (4), p.n/a

2020

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Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns

Communications biology, 2022-01, Vol.5 (1), p.92-92, Article 92

2022

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The impossible challenge of estimating non-existent moments of the Chemical Master Equation

Bioinformatics (Oxford, England), 2023-06, Vol.39 (Supplement_1), p.i440-i447

2023

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Inference of finite mixture models and the effect of binning

Statistical applications in genetics and molecular biology, 2019-07, Vol.18 (4)

2019

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MEMO: multi-experiment mixture model analysis of censored data

Bioinformatics (Oxford, England), 2016-08, Vol.32 (16), p.2464-2472

2016

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SiCaSMA: An Alternative Stochastic Description via Concatenation of Markov Processes for a Class of Catalytic Systems

Mathematics (Basel), 2021-05, Vol.9 (10), p.1074

2021

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A computational model of PKD and CERT interactions at the trans-Golgi network of mammalian cells

BMC systems biology, 2015-02, Vol.9 (1), p.9-9, Article 9

2015

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The role of stochastic sequestration dynamics for intrinsic noise filtering in signaling network motifs

Journal of theoretical biology, 2018-10, Vol.455, p.86-96

2018

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The Physics behind Systems Biology

EPJ Nonlinear Biomedical Physics, 2016-08, Vol.4 (1), p.1, Article 7

2016

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Quasi-Entropy Closure: a fast and reliable approach to close the moment equations of the Chemical Master Equation

Bioinformatics (Oxford, England), 2022-09, Vol.38 (18), p.4352-4359

2022

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Hamiltonian Monte Carlo methods for efficient parameter estimation in steady state dynamical systems

BMC bioinformatics, 2014-07, Vol.15 (1), p.253-253, Article 253

2014

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On the accuracy of the epigenetic copy machine: comprehensive specificity analysis of the DNMT1 DNA methyltransferase

Reversible switching and stability of the epigenetic memory system in bacteria

DNA sequence-dependent activity and base flipping mechanisms of DNMT1 regulate genome-wide DNA methylation

Model‐based robustness and bistability analysis for methylation‐based, epigenetic memory systems

Bayesian estimation reveals that reproducible models in Systems Biology get more citations

The effect of normalisation and error model choice on the distribution of the maximum likelihood estimator for a biochemical reaction

Editorial: Computational Modeling for Liver Surgery and Interventions

Model-Based Design of a Synthetic Oscillator Based on an Epigenetic Methylation Memory System

Identification of models of heterogeneous cell populations from population snapshot data

Impact of measurement noise, experimental design, and estimation methods on Modular Response Analysis based network reconstruction

Sampling-based Bayesian approaches reveal the importance of quasi-bistable behavior in cellular decision processes on the example of the MAPK signaling pathway in PC-12 cell lines

The tumor suppressor protein DLC1 maintains protein kinase D activity and Golgi secretory function

Periportal steatosis in mice affects distinct parameters of pericentral drug metabolism

Hepatectomy-Induced Alterations in Hepatic Perfusion and Function - Toward Multi-Scale Computational Modeling for a Better Prediction of Post-hepatectomy Liver Function

Modeling of biocatalytic reactions: A workflow for model calibration, selection, and validation using Bayesian statistics

Flanking sequences influence the activity of TET1 and TET2 methylcytosine dioxygenases and affect genomic 5hmC patterns

The impossible challenge of estimating non-existent moments of the Chemical Master Equation

Inference of finite mixture models and the effect of binning

MEMO: multi-experiment mixture model analysis of censored data

SiCaSMA: An Alternative Stochastic Description via Concatenation of Markov Processes for a Class of Catalytic Systems

A computational model of PKD and CERT interactions at the trans-Golgi network of mammalian cells

The role of stochastic sequestration dynamics for intrinsic noise filtering in signaling network motifs

The Physics behind Systems Biology

Quasi-Entropy Closure: a fast and reliable approach to close the moment equations of the Chemical Master Equation

Hamiltonian Monte Carlo methods for efficient parameter estimation in steady state dynamical systems

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