Construction and Validation of a Regulatory Network for Pluripotency and Self-Renewal of Mouse Embryonic Stem Cells

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

(2014) Maria Herberg et al.   PLoS One

Defining an essential transcription factor program for naive pluripotency

(2014) S.- J. Dunn et al.   SCIENCE

In-silico models of stem cell and developmental systems

(2014) Yaki Setty   Theoretical Biology and Medical Modelling

Co-regulation in embryonic stem cells via context-dependent binding of transcription factors

(2013) Yuju Lee et al.   BIOINFORMATICS

Novel Insights into Embryonic Stem Cell Self-Renewal Revealed Through Comparative Human and Mouse Systems Biology Networks

(2013) Karen G. Dowell et al.   STEM CELLS

Quantifying Cell Fate Decisions for Differentiation and Reprogramming of a Human Stem Cell Network: Landscape and Biological Paths

(2013) Chunhe Li et al.   PLoS Computational Biology

Constructing Logical Models of Gene Regulatory Networks by Integrating Transcription Factor–DNA Interactions with Expression Data: An Entropy-Based Approach

(2012) Guy Karlebach et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Nanog-dependent feedback loops regulate murine embryonic stem cell heterogeneity

(2012) Ben D. MacArthur et al.   NATURE CELL BIOLOGY

Wdr5 Mediates Self-Renewal and Reprogramming via the Embryonic Stem Cell Core Transcriptional Network

(2011) Yen-Sin Ang et al.   CELL

Control of the Embryonic Stem Cell State

(2011) Richard A. Young   CELL

Gene expression heterogeneities in embryonic stem cell populations: origin and function

(2011) Alfonso Martinez Arias et al.   CURRENT OPINION IN CELL BIOLOGY

Single cell transcriptional profiling reveals heterogeneity of human induced pluripotent stem cells

(2011) Kazim H. Narsinh et al.   JOURNAL OF CLINICAL INVESTIGATION

The ground state of pluripotency

(2010) Jason Wray et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Tracing the Derivation of Embryonic Stem Cells from the Inner Cell Mass by Single-Cell RNA-Seq Analysis

(2010) Fuchou Tang et al.   Cell Stem Cell

Nanog Overcomes Reprogramming Barriers and Induces Pluripotency in Minimal Conditions

(2010) Thorold W. Theunissen et al.   CURRENT BIOLOGY

Oct4-Induced Pluripotency in Adult Neural Stem Cells

(2009) Jeong Beom Kim et al.   CELL

Systems-level dynamic analyses of fate change in murine embryonic stem cells

(2009) Rong Lu et al.   NATURE

Reprogramming of fibroblasts into induced pluripotent stem cells with orphan nuclear receptor Esrrb

(2009) Bo Feng et al.   NATURE CELL BIOLOGY

Wnt antagonism of Shh facilitates midbrain floor plate neurogenesis

(2009) Milan Joksimovic et al.   NATURE NEUROSCIENCE

Distilling Free-Form Natural Laws from Experimental Data

(2009) Michael Schmidt et al.   SCIENCE

An in situ hybridization-based screen for heterogeneously expressed genes in mouse ES cells

(2008) Mark G. Carter et al.   GENE EXPRESSION PATTERNS

Tcf3 is an integral component of the core regulatory circuitry of embryonic stem cells

(2008) M. F. Cole et al.   GENES & DEVELOPMENT

The ground state of embryonic stem cell self-renewal

(2008) Qi-Long Ying et al.   NATURE

Stochasticity and the Molecular Mechanisms of Induced Pluripotency

(2008) Ben D. MacArthur et al.   PLoS One

Tcf3 Functions as a Steady-State Limiter of Transcriptional Programs of Mouse Embryonic Stem Cell Self-Renewal

(2008) Fei Yi et al.   STEM CELLS