Modeling unveils sex differences of signaling networks in mouse embryonic stem cells

Mutations in ALK signaling pathways conferring resistance to ALK inhibitor treatment lead to collateral vulnerabilities in neuroblastoma cells

(2022) Mareike Berlak et al.   Molecular Cancer

Neuroblastoma signalling models unveil combination therapies targeting feedback-mediated resistance

(2021) Mathurin Dorel et al.   PLoS Computational Biology

X-Chromosome Dosage Modulates Multiple Molecular and Cellular Properties of Mouse Pluripotent Stem Cells Independently of Global DNA Methylation Levels

(2019) Juan Song et al.   Stem Cell Reports

Isoform-specific Ras signaling is growth factor dependent

(2019) Fiona E. Hood et al.   MOLECULAR BIOLOGY OF THE CELL

Cell type-dependent differential activation of ERK by oncogenic KRAS in colon cancer and intestinal epithelium

(2019) Raphael Brandt et al.   Nature Communications

Modelling signalling networks from perturbation data

(2018) Mathurin Dorel et al.   BIOINFORMATICS

Negative feedback via RSK modulates Erk‐dependent progression from naïve pluripotency

(2018) Isabelle RE Nett et al.   EMBO REPORTS

Modeling signaling‐dependent pluripotency with Boolean logic to predict cell fate transitions

(2018) Ayako Yachie‐Kinoshita et al.   Molecular Systems Biology

A common molecular logic determines embryonic stem cell self‐renewal and reprogramming

(2018) Sara‐Jane Dunn et al.   EMBO JOURNAL

X-chromosome dosage as a modulator of pluripotency, signalling and differentiation?

(2017) Edda G. Schulz   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Art of Capturing Pluripotency: Creating the Right Culture

(2017) Qi-Long Ying et al.   Stem Cell Reports

Disruption of CRAF-Mediated MEK Activation Is Required for Effective MEK Inhibition in KRAS Mutant Tumors

(2014) Piro Lito et al.   CANCER CELL

The Two Active X Chromosomes in Female ESCs Block Exit from the Pluripotent State by Modulating the ESC Signaling Network

(2014) Edda G. Schulz et al.   Cell Stem Cell

The birth of embryonic pluripotency

(2014) T. Boroviak et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A Model-Based Analysis of Culture-Dependent Phenotypes of mESCs

(2014) Maria Herberg et al.   PLoS One

Structural basis of GSK-3 inhibition by N-terminal phosphorylation and by the Wnt receptor LRP6

(2014) Jennifer L Stamos et al.   eLife

FGF Signaling Inhibition in ESCs Drives Rapid Genome-wide Demethylation to the Epigenetic Ground State of Pluripotency

(2013) Gabriella Ficz et al.   Cell Stem Cell

Role and control of X chromosome dosage in mammalian development

(2013) Edda G Schulz et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Identification of the missing pluripotency mediator downstream of leukaemia inhibitory factor

(2013) Graziano Martello et al.   EMBO JOURNAL

Network quantification of EGFR signaling unveils potential for targeted combination therapy

(2013) B. Klinger et al.   Molecular Systems Biology

Naive pluripotency is associated with global DNA hypomethylation

(2013) Harry G Leitch et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

ERK2 Suppresses Self-Renewal Capacity of Embryonic Stem Cells, but Is Not Required for Multi-Lineage Commitment

(2013) William B. Hamilton et al.   PLoS One

The Transcriptional and Epigenomic Foundations of Ground State Pluripotency

(2012) Hendrik Marks et al.   CELL

The transcriptional regulation of pluripotency

(2012) Jia-Chi Yeo et al.   CELL RESEARCH

BMP4 Signaling Acts via Dual-Specificity Phosphatase 9 to Control ERK Activity in Mouse Embryonic Stem Cells

(2012) Zhongwei Li et al.   Cell Stem Cell

Reverse engineering a hierarchical regulatory network downstream of oncogenic KRAS

(2012) Iwona Stelniec-Klotz et al.   Molecular Systems Biology

ERK1 and ERK2 regulate embryonic stem cell self-renewal through phosphorylation of Klf4

(2012) Myoung Ok Kim et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Pluripotency in the Embryo and in Culture

(2012) J. Nichols et al.   Cold Spring Harbor Perspectives in Biology

Strong negative feedback from Erk to Raf confers robustness to MAPK signalling

(2011) R. Fritsche-Guenther et al.   Molecular Systems Biology

Kinome siRNA-phosphoproteomic screen identifies networks regulating AKT signaling

(2011) Y Lu et al.   ONCOGENE

The mTOR-Regulated Phosphoproteome Reveals a Mechanism of mTORC1-Mediated Inhibition of Growth Factor Signaling

(2011) P. P. Hsu et al.   SCIENCE

Smad2 mediates Activin/Nodal signaling in mesendoderm differentiation of mouse embryonic stem cells

(2010) Teng Fei et al.   CELL RESEARCH

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

(2009) A. Raue et al.   BIOINFORMATICS

Nanog Is the Gateway to the Pluripotent Ground State

(2009) Jose Silva et al.   CELL

 -TrCP-Mediated Ubiquitination and Degradation of PHLPP1 Are Negatively Regulated by Akt

(2009) X. Li et al.   MOLECULAR AND CELLULAR BIOLOGY

A parallel circuit of LIF signalling pathways maintains pluripotency of mouse ES cells

(2009) Hitoshi Niwa et al.   NATURE

Characterization of the Phosphoinositide 3-Kinase-Dependent Transcriptome in Murine Embryonic Stem Cells: Identification of Novel Regulators of Pluripotency

(2009) Michael P. Storm et al.   STEM CELLS

Flexible informatics for linking experimental data to mathematical models via DataRail

(2008) Julio Saez-Rodriguez et al.   BIOINFORMATICS

The ground state of embryonic stem cell self-renewal

(2008) Qi-Long Ying et al.   NATURE