Notably, rare switches occur between the two expression states of HML and HMR in sir1 mutants, during which silencing is either lost or established.
Northern blot expression profiles were displayed by three expression states as well as a bar chart, allowing for automated evaluation.
The model consists of 4 ODEs, 10 parameters, and 3 algebraic equations, including several nonlinearities, both products of states, and events switching between two expressions depending on the value of a state.
This module has the intrinsic capacity to generate four distinct expression states, each characterized by the expression of a particular combination of pair-rule genes or expression mode.
These cells exist in a continuum between two states: a resting state and an activated state.
For instance, a frequently applied method is to score genes by their differential expression between two biological states (such as healthy vs. diseased).
Gene Set Enrichment Analysis (GSEA) is a computational method that determines whether a defined set of genes shows statistically significant differences in expression between two biological states [50], [51].
GSEA uses the whole set of genes without pre-selection to determine if a pre-defined set of genes constituting a functional category show significant, concordant differences in expression between two biological states [ 32].
It employs the statistical significance of changes in gene or protein expression data between two cellular states to extract metabolic models (subnetworks) that reflect the expression dynamics [ 11].
Third, GX-FBA is based on the level of differential gene-expression between two activity states, here chosen as the unperturbed wild-type (with maximal growth) and a stress state, although other pairs of activity states are possible.
