Modeling gene regulatory networks for cell fate specification

A WARMFLASH, AR DINNER - Statistical Mechanics of Cellular …, 2009 - books.google.com
Many cellular systems exist in more than one state. Two of the simplest and best-
characterized examples are bacteriophage A, which can be in the lytic or lysogenic state …

Modelling cell lineage using a meta-Boolean tree model with a relation to gene regulatory networks

JÅ Larsson, N Wadströmer, O Hermanson… - Journal of theoretical …, 2011 - Elsevier
A cell lineage is the ancestral relationship between a group of cells that originate from a
single founder cell. For example, in the embryo of the nematode Caenorhabditis elegans an …

How to deal with large models?

WS Hlavacek - Molecular Systems Biology, 2009 - embopress.org
The regulatory systems that allow cells to adapt to their environments are exceedingly
complex, and although we know a great deal about the intricate mechanistic details of many …

Structural requirements and discrimination of cell differentiation networks

C Breindl, D Schittler, S Waldherr, F Allgöwer - IFAC Proceedings Volumes, 2011 - Elsevier
Mathematical models of stem cell differentiation are commonly based upon the concept of
subsequent cell fate decisions, each controlled by a gene regulatory network. These …

Transcriptional regulation of lineage commitment-a stochastic model of cell fate decisions

J Teles, C Pina, P Edén, M Ohlsson… - PLoS computational …, 2013 - journals.plos.org
Molecular mechanisms employed by individual multipotent cells at the point of lineage
commitment remain largely uncharacterized. Current paradigms span from instructive to …

Modeling cellular variability

B Munsky - Quantitative biology: from molecular to cellular …, 2012 - api.taylorfrancis.com
Phenotypical diversity may arise despite clonal genetics for a number of reasons, many of
which are due to fluctuations in the environment: for example, cells nearer to nutrient …

[PDF][PDF] Mathematical modeling of cell-fate specification: from simple to complex epigenetics

JF Rabajante, AL Babierra, JM Tubay… - Stem Cells …, 2015 - academia.edu
Modern biology will never be the same without mathematical and computational tools. Using
mind map with “epigenetics” as the root, we discuss the current advancement in the field of …

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 …

Deterministic and stochastic models of genetic regulatory networks

I Shmulevich, JD Aitchison - Methods in enzymology, 2009 - Elsevier
Traditionally molecular biology research has tended to reduce biological pathways to
composite units studied as isolated parts of the cellular system. With the advent of high …

Theory of cell fate

MJ Casey, PS Stumpf… - … Reviews: Systems Biology …, 2020 - Wiley Online Library
Cell fate decisions are controlled by complex intracellular molecular regulatory networks.
Studies increasingly reveal the scale of this complexity: not only do cell fate regulatory …