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List of works by Ursula Klingmüller

A Systems Biology Study on NFκB Signaling in Primary Mouse Hepatocytes

scientific article published on 31 December 2012

A Thymic Epithelial Stem Cell Pool Persists throughout Ontogeny and Is Modulated by TGF-β.

scientific article published on October 2016

A functional green fluorescent protein-erythropoietin receptor despite physical separation of JAK2 binding site and tyrosine residues

scientific article

A mouse model for visualization and conditional mutations in the erythroid lineage

scientific article published on 15 April 2004

A rapidly reversible chemical dimerizer system to study lipid signaling in living cells.

scientific article

A systems biology approach to analyse amplification in the JAK2-STAT5 signalling pathway

scientific article published on 25 April 2008

A systems biology approach to unravel the drug-TNFα signaling synergy in idiosyncratic DILI

scholarly article by Bob van de Water et al published September 2014 in Toxicology Letters

Addressing parameter identifiability by model-based experimentation.

scientific article published in March 2011

An individual-based model for collective cancer cell migration explains speed dynamics and phenotype variability in response to growth factors

scientific article published on 3 March 2017

An integrative model links multiple inputs and signaling pathways to the onset of DNA synthesis in hepatocytes

scientific article

Automated Detection of Portal Fields and Central Veins in Whole-Slide Images of Liver Tissue

scientific article published on 20 January 2022

BMP-9 interferes with liver regeneration and promotes liver fibrosis.

scientific article published on 23 March 2017

Cancer cell specific inhibition of Wnt/β-catenin signaling by forced intracellular acidification.

scientific article

Cellular ERK phospho-form profiles with conserved preference for a switch-like pattern.

scientific article

Centrosomal targeting of tyrosine kinase activity does not enhance oncogenicity in chronic myeloproliferative disorders

scientific article

Characterisation of cell-type-specific responses in the liver towards IL-1β by a mathematical model for the p38MAPK/MK2 pathway

article

Combining theoretical analysis and experimental data generation reveals IRF9 as a crucial factor for accelerating interferon α-induced early antiviral signalling

scientific article

Comprehensive serial biobanking in advanced NSCLC: feasibility, challenges and perspectives

scientific article published on 01 August 2020

Computational processing and error reduction strategies for standardized quantitative data in biological networks

scientific article

Conditional deletion of Nedd4-2 in lung epithelial cells causes progressive pulmonary fibrosis in adult mice

scientific article published on 24 April 2020

Context-specific flow through the MEK/ERK module produces cell- and ligand-specific patterns of ERK single and double phosphorylation

scientific article published on 2 February 2016

Correction: Lessons Learned from Quantitative Dynamical Modeling in Systems Biology.

scientific article

Correlated receptor transport processes buffer single-cell heterogeneity

scientific article published on 25 September 2017

Covering a broad dynamic range: information processing at the erythropoietin receptor

scientific article

Cytokine receptor signal transduction and the control of hematopoietic cell development

scientific article published on January 1996

Cytokinesis failure in RhoA-deficient mouse erythroblasts involves actomyosin and midbody dysregulation and triggers p53 activation

scientific article published on 30 July 2015

Data2Dynamics: a modeling environment tailored to parameter estimation in dynamical systems

scientific article

Disentangling molecular mechanisms regulating sensitization of interferon alpha signal transduction

scientific article published on 01 July 2020

Disentangling the Complexity of HGF Signaling by Combining Qualitative and Quantitative Modeling

scientific article published on 23 April 2015

Distinct roles of Mdm2 and Mdm4 in red cell production

scientific article

Division of labor by dual feedback regulators controls JAK2/STAT5 signaling over broad ligand range.

scientific article

Downregulation of the TGFβ Pseudoreceptor BAMBI in Non-Small Cell Lung Cancer Enhances TGFβ Signaling and Invasion.

scientific article

Dynamic mathematical modeling of IL13-induced signaling in Hodgkin and primary mediastinal B-cell lymphoma allows prediction of therapeutic targets

scientific article published on 2 December 2010

Dynamic pathway modeling: feasibility analysis and optimal experimental design

scientific article

Dynamics and feedback loops in the transforming growth factor β signaling pathway

scientific article published on 5 January 2012

Dynamics of receptor and protein transducer homodimerisation

scientific article published on 31 October 2008

Effects of telomerase modulation in human hematopoietic progenitor cells

scientific article published in January 2004

Enhanced transgene expression in primitive hematopoietic progenitor cells and embryonic stem cells efficiently transduced by optimized retroviral hybrid vectors.

scientific article published on April 2002

Erythropoiesis and globin switching in compound Klf1::Bcl11a mutant mice

scientific article published on 29 January 2013

Erythropoietin improves the accumulation and therapeutic effects of carboplatin by enhancing tumor vascularization and perfusion

scientific article published on May 2015

Excemplify: A Flexible Template Based Solution, Parsing and Managing Data in Spreadsheets for Experimentalists

scientific article

Excemplify: a flexible template based solution, parsing and managing data in spreadsheets for experimentalists.

scientific article

Expression ratio of the TGFβ-inducible gene MYO10 is prognostic for overall survival of squamous cell lung cancer patients and predicts chemotherapy response.

scientific article published on 22 June 2018

Forced dimerization of gp130 leads to constitutive STAT3 activation, cytokine-independent growth, and blockade of differentiation of embryonic stem cells

scientific article

Hepadnavirus infection requires interaction between the viral pre-S domain and a specific hepatocellular receptor.

scientific article published on December 1993

Hepatocellular carcinoma: a systems biology perspective

scientific article published on 25 February 2013

Hepatocyte-specific S100a8 and S100a9 transgene expression in mice causes Cxcl1 induction and systemic neutrophil enrichment

scientific article published on 15 December 2012

Heterogeneous kinetics of AKT signaling in individual cells are accounted for by variable protein concentration

scientific article published on 28 November 2012

High-Content Imaging Platform for Profiling Intracellular Signaling Network Activity in Living Cells.

scientific article published on 07 December 2016

High-dimensional Bayesian parameter estimation: case study for a model of JAK2/STAT5 signaling

scientific article published on 16 April 2013

Hypoxia Routes Tryptophan Homeostasis Towards Increased Tryptamine Production

scientific article published on 19 February 2021

IL-1β-induced and p38MAPK-dependent activation of the mitogen-activated protein kinase-activated protein kinase 2 (MK2) in hepatocytes: Signal transduction with robust and concentration-independent signal amplification

scientific article published on 21 February 2017

Identifiability and observability analysis for experimental design in nonlinear dynamical models

scientific article published in December 2010

Identification of Cell Type-Specific Differences in Erythropoietin Receptor Signaling in Primary Erythroid and Lung Cancer Cells

scientific article

Identification of Interleukin1β as an Amplifier of Interferon alpha-induced Antiviral Responses

scientific article published on 01 October 2020

Identification of a novel pathway important for proliferation and differentiation of primary erythroid progenitors

scientific article

Identification of isoform-specific dynamics in phosphorylation-dependent STAT5 dimerization by quantitative mass spectrometry and mathematical modeling

scientific article

Identification of nucleocytoplasmic cycling as a remote sensor in cellular signaling by databased modeling

scientific article

In silico labeling reveals the time-dependent label half-life and transit-time in dynamical systems.

scientific article

Interaction of the erythropoietin and stem-cell-factor receptors

scientific article

Interleukin-6 and oncostatin M-induced growth inhibition of human A375 melanoma cells is STAT-dependent and involves upregulation of the cyclin-dependent kinase inhibitor p27/Kip1

scientific article published on 01 June 1999

Intramolecular regulation of protein tyrosine phosphatase SH-PTP1: a new function for Src homology 2 domains

scientific article

Knowledge-based matrix factorization temporally resolves the cellular responses to IL-6 stimulation

scientific article

Lessons learned from quantitative dynamical modeling in systems biology

scientific article

Leukemogenic Ptpn11 allele causes defective erythropoiesis in mice

scientific article

MSPypeline: a python package for streamlined data analysis of mass spectrometry-based proteomics

scientific article published on 13 January 2022

Managing the challenge of drug-induced liver injury: a roadmap for the development and deployment of preclinical predictive models

scientific article published on 20 November 2019

Mathematical modeling of hematological malignancies

scientific article published in January 2012

Model Based Targeting of IL-6-Induced Inflammatory Responses in Cultured Primary Hepatocytes to Improve Application of the JAK Inhibitor Ruxolitinib.

scientific article published on 9 October 2017

Model-based extension of high-throughput to high-content data

scientific article

Model-based identification of TNFα-induced IKKβ-mediated and IκBα-mediated regulation of NFκB signal transduction as a tool to quantify the impact of drug-induced liver injury compounds.

scientific article published on 11 June 2018

Multiple tyrosine residues in the cytosolic domain of the erythropoietin receptor promote activation of STAT5.

scientific article published on August 1996

One-source peptide/phosphopeptide standards for accurate phosphorylation degree determination

scientific article published on 13 January 2011

Packing density of the erythropoietin receptor transmembrane domain correlates with amplification of biological responses

scientific article published on 15 October 2008

Predictive mathematical models of cancer signalling pathways

scientific article published on February 2012

Primary mouse hepatocytes for systems biology approaches: a standardized in vitro system for modelling of signal transduction pathways.

scientific article published in November 2006

Prognostic significance of erythropoietin in pancreatic adenocarcinoma

scientific article

Protein abundance of AKT and ERK pathway components governs cell type-specific regulation of proliferation

scientific article published on 24 January 2017

Protein tyrosine phosphatase 1B participates in the down-regulation of erythropoietin receptor signalling

scientific article

Quantification of frap experiments in live cell image sequences by combining segmentation and registration

scholarly article published March 2011

Quantitative analysis of amino acid metabolism in liver cancer links glutamate excretion to nucleotide synthesis

scientific article published on 27 April 2020

Quantitative data generation for systems biology: the impact of randomisation, calibrators and normalisers.

scientific article

Quantitative protein microarrays for time-resolved measurements of protein phosphorylation

scientific article published in November 2008

Quenched substrates for live-cell labeling of SNAP-tagged fusion proteins with improved fluorescent background

scientific article published on October 2010

Receptor dynamics in signaling

scientific article published on January 2012

Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008)

scientific article

Resolving the Combinatorial Complexity of Smad Protein Complex Formation and Its Link to Gene Expression

scientific article published on 12 December 2017

Self assembly of the transmembrane domain promotes signal transduction through the erythropoietin receptor

scientific article

Short-term information processing, long-term responses: Insights by mathematical modeling of signal transduction. Early activation dynamics of key signaling mediators can be predictive for cell fate decisions

scientific article published on 23 April 2012

Simulation Methods for Optimal Experimental Design in Systems Biology

article by D. Faller et al published December 2003 in Simulation

Sox6 cell-autonomously stimulates erythroid cell survival, proliferation, and terminal maturation and is thereby an important enhancer of definitive erythropoiesis during mouse development

scientific article

Spatial aspects in the SMAD signaling pathway.

scientific article published on 18 September 2012

Specific recruitment of SH-PTP1 to the erythropoietin receptor causes inactivation of JAK2 and termination of proliferative signals

scientific article (publication date: 10 March 1995)

Standardizing experimental protocols

scientific article published on 19 July 2008

Stat5 activation enables erythropoiesis in the absence of EpoR and Jak2.

scientific article published on 31 January 2008

Structural and practical identifiability analysis of partially observed dynamical models by exploiting the profile likelihood

scientific article

Systems biology of JAK/STAT signalling

scientific article published on January 2008

Systems biology of mammalian cells: A report from the Freiburg conference ⬇️

scientific article published on 01 December 2010

T160‐phosphorylated CDK2 defines threshold for HGF dependent proliferation in primary hepatocytes

scientific article

TTCA: an R package for the identification of differentially expressed genes in time course microarray data

scientific article

Targeted near-infrared imaging of the erythropoietin receptor in human lung cancer xenografts

scientific article published on 6 January 2012

The ParaHox gene Cdx4 induces acute erythroid leukemia in mice

scientific article published on 01 November 2019

The cytokine-inducible Scr homology domain-containing protein negatively regulates signaling by promoting apoptosis in erythroid progenitor cells

scientific article published on 18 November 2002

The erythropoietin receptor: biogenesis, dimerization, and intracellular signal transduction

scientific article published on January 1995

The glucocorticoid receptor controls hepatic dyslipidemia through Hes1.

scientific article published in September 2008

The hepatotoxic fluoroquinolone trovafloxacin disturbs TNF- and LPS-induced p65 nuclear translocation in vivo and in vitro

scientific article published on 06 February 2020

The interface between self-assembling erythropoietin receptor transmembrane segments corresponds to a membrane-spanning leucine zipper

scientific article published on 5 November 2003

The liver-specific microRNA miR-122 controls systemic iron homeostasis in mice

scientific article

The microtubule affinity regulating kinase MARK4 promotes axoneme extension during early ciliogenesis

scientific article

The role of tyrosine phosphorylation in proliferation and maturation of erythroid progenitor cells--signals emanating from the erythropoietin receptor

scientific article published on November 1997

The virtual liver: state of the art and future perspectives

scientific article

Theoretical analysis of time-to-peak responses in biological reaction networks.

scientific article published on 25 May 2010

Theoretical and experimental analysis links isoform-specific ERK signalling to cell fate decisions

scientific article

Transcription factors KLF1 and KLF2 positively regulate embryonic and fetal beta-globin genes through direct promoter binding

scientific article

Tyrosine Residues within the Intracellular Domain of the Erythropoietin Receptor Mediate Activation of AP-1 Transcription Factors

scientific article published in Journal of Biological Chemistry

Unbiased RNAi screen for hepcidin regulators links hepcidin suppression to proliferative Ras/RAF and nutrient-dependent mTOR signaling

scientific article published on 02 January 2014

Unraveling liver complexity from molecular to organ level: challenges and perspectives

scientific article

Vegf regulates embryonic erythroid development through Gata1 modulation

scientific article published on 16 June 2010

Whither systems medicine?

scientific article published on 2 March 2018

mTOR-mediated cancer drug resistance suppresses autophagy and generates a druggable metabolic vulnerability

scientific article published on 17 September 2020

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