Transcriptional dynamics of the embryonic stem cell switch

V Chickarmane, C Troein, UA Nuber… - PLoS computational …, 2006 - journals.plos.org
Recent ChIP experiments of human and mouse embryonic stem cells have elucidated the
architecture of the transcriptional regulatory circuitry responsible for cell determination …

Regulated fluctuations in nanog expression mediate cell fate decisions in embryonic stem cells

T Kalmar, C Lim, P Hayward, S Muñoz-Descalzo… - PLoS …, 2009 - journals.plos.org
There is evidence that pluripotency of mouse embryonic stem (ES) cells is associated with
the activity of a network of transcription factors with Sox2, Oct4, and Nanog at the core. Using …

Transcriptional regulatory networks in embryonic stem cells

YS Chan, L Yang, HH Ng - Epigenetics and Disease: Pharmaceutical …, 2011 - Springer
Transcriptional regulation is one of the most fundamental processes in biology, governing
the morphology, function, and behavior of cells and thus the survival of organisms. The …

Core transcriptional regulatory circuitry in human embryonic stem cells

LA Boyer, TI Lee, MF Cole, SE Johnstone, SS Levine… - cell, 2005 - cell.com
The transcription factors OCT4, SOX2, and NANOG have essential roles in early
development and are required for the propagation of undifferentiated embryonic stem (ES) …

A gene regulatory network in mouse embryonic stem cells

Q Zhou, H Chipperfield, DA Melton… - Proceedings of the …, 2007 - National Acad Sciences
We analyze new and existing expression and transcription factor-binding data to
characterize gene regulatory relations in mouse ES cells (ESC). In addition to confirming the …

Nanog variability and pluripotency regulation of embryonic stem cells-insights from a mathematical model analysis

I Glauche, M Herberg, I Roeder - PloS one, 2010 - journals.plos.org
The expression of the transcription factors Oct4, Sox2, and Nanog is commonly associated
with pluripotency of mouse embryonic stem (ES) cells. However, recent observations …

Stem cell differentiation as a many-body problem

B Zhang, PG Wolynes - Proceedings of the National …, 2014 - National Acad Sciences
Stem cell differentiation has been viewed as coming from transitions between attractors on
an epigenetic landscape that governs the dynamics of a regulatory network involving many …

Analysis of the mouse embryonic stem cell regulatory networks obtained by ChIP-chip and ChIP-PET

D Mathur, TW Danford, LA Boyer, RA Young… - Genome biology, 2008 - Springer
Background Genome-wide approaches have begun to reveal the transcriptional networks
responsible for pluripotency in embryonic stem (ES) cells. Chromatin Immunoprecipitation …

A computational model for understanding stem cell, trophectoderm and endoderm lineage determination

V Chickarmane, C Peterson - PLoS one, 2008 - journals.plos.org
Background Recent studies have associated the transcription factors, Oct4, Sox2 and Nanog
as parts of a self-regulating network which is responsible for maintaining embryonic stem …

Context-dependent wiring of Sox2 regulatory networks for self-renewal of embryonic and trophoblast stem cells

K Adachi, I Nikaido, H Ohta, S Ohtsuka, H Ura… - Molecular cell, 2013 - cell.com
Sox2 is a transcription factor required for the maintenance of pluripotency. It also plays an
essential role in different types of multipotent stem cells, raising the possibility that Sox2 …