In many stochastic simulations of biochemical reaction networks, it is desirable to "coarse grain" the reaction set, removing fast reactions while retaining the correct system dynamics. Various coarse-graining methods have been proposed, but it remains unclear which methods are reliable and which reactions can safely be eliminated. We address these issues for a model gene regulatory network tha...

The determination of reaction pathways is one of the most important functions that should be performed in exploring the kinetics of catalyzed chemical reactions or biochemical reactions, the latter being generally catalyzed by enzymes. It is proven that the terms, "type-I extreme pathway" and "structurally minimal pathway", both introduced to characterize the kinetics of a catalyzed reaction ar...

This paper reports the first example of the use of an enzymatic reaction to generate a photoresponsive hydrogelator, which represents a convenient route to expand the scope of optically controlled molecular self-assembly in water.

BACKGROUND The present study aimed to examine pathways to imprisonment for women in Pakistan. It was hypothesized that early life victimization in women, problematic family relationship and economical deprivation would be significantly associated with criminal activities of women prisoners. METHOD To identify the pathways to prison, structured interview was devised by the researchers. Sample ...

) Time-Scaled Stochastic Input to Biochemical Reaction Networks by Rachel L. Thomas Department of Mathematics Duke University