A deterministic map of Waddington's epigenetic landscape for cell fate specification

S Bhattacharya, Q Zhang, ME Andersen - BMC systems biology, 2011 - Springer
Background The image of the" epigenetic landscape", with a series of branching valleys and
ridges depicting stable cellular states and the barriers between those states, has been a …

Engineering of a synthetic quadrastable gene network to approach Waddington landscape and cell fate determination

F Wu, RQ Su, YC Lai, X Wang - Elife, 2017 - elifesciences.org
The process of cell fate determination has been depicted intuitively as cells travelling and
resting on a rugged landscape, which has been probed by various theoretical studies …

Epigenetic state network approach for describing cell phenotypic transitions

P Wang, C Song, H Zhang, Z Wu, XJ Tian… - Interface …, 2014 - royalsocietypublishing.org
Recent breakthroughs of cell phenotype reprogramming impose theoretical challenges on
unravelling the complexity of large circuits maintaining cell phenotypes coupled at many …

Transition state characteristics during cell differentiation

RD Brackston, E Lakatos… - PLoS computational …, 2018 - journals.plos.org
Models describing the process of stem-cell differentiation are plentiful, and may offer insights
into the underlying mechanisms and experimentally observed behaviour. Waddington's …

Transition states and cell fate decisions in epigenetic landscapes

N Moris, C Pina, AM Arias - Nature Reviews Genetics, 2016 - nature.com
Waddington's epigenetic landscape is an abstract metaphor frequently used to represent the
relationship between gene activity and cell fates during development. Over the past few …

[HTML][HTML] Noise distorts the epigenetic landscape and shapes cell-fate decisions

MA Coomer, L Ham, MPH Stumpf - Cell Systems, 2022 - cell.com
The Waddington epigenetic landscape has become an iconic representation of the cellular
differentiation process. Recent single-cell transcriptomic data provide new opportunities for …

Statistically derived geometrical landscapes capture principles of decision-making dynamics during cell fate transitions

M Sáez, R Blassberg, E Camacho-Aguilar, ED Siggia… - Cell systems, 2022 - cell.com
Fate decisions in developing tissues involve cells transitioning between discrete cell states,
each defined by distinct gene expression profiles. The Waddington landscape, in which the …

Modeling the epigenetic attractors landscape: toward a post-genomic mechanistic understanding of development

J Davila-Velderrain, JC Martinez-Garcia… - Frontiers in …, 2015 - frontiersin.org
Robust temporal and spatial patterns of cell types emerge in the course of normal
development in multicellular organisms. The onset of degenerative diseases may result from …

Quantifying Waddington landscapes and paths of non-adiabatic cell fate decisions for differentiation, reprogramming and transdifferentiation

C Li, J Wang - Journal of The Royal Society Interface, 2013 - royalsocietypublishing.org
Cellular differentiation, reprogramming and transdifferentiation are determined by
underlying gene regulatory networks. Non-adiabatic regulation via slow binding/unbinding …

Quantifying the Waddington landscape and biological paths for development and differentiation

J Wang, K Zhang, L Xu, E Wang - Proceedings of the …, 2011 - National Acad Sciences
We developed a theoretical framework to prove the existence and quantify the Waddington
landscape as well as chreode-biological paths for development and differentiation. The cells …