Unlike previous methods, the functional gene group approach does not rely on post hoc formulation of pathways or networks, but instead takes a hypothesis-driven approach by directly testing functional gene groups.
Knowing the possible surface species on the catalyst surface during the FT synthesis and their reactivity, enables the formulation of reaction pathways.
Thus the biological formulation of the pathway is separable from the computer method employed for simulation and analysis, allowing for interoperability with other tools for modelling and analysis of biochemical systems.
The CCSM document reflects this notion, describing sense-making/problem-solving proficiency in terms of understanding problem situations in terms of 'givens, constraints, relationships, and goals' (p. 6), with this understanding, feeding in to the formulation of possible solution pathways.
The isolation and stereochemical elucidation of the products lead to formulation of reasonable reaction pathways to the cisoid-derived sesquiterpene skeletons(16).
Recently we proposed a modified Green-Kubo method for the viscosity using a master-equation formulation with transition state pathway (TSP) sampling.
Our basic formulation defines a dysregulated pathway as the smallest connected subgraph in the network in which a specific number of genes are dysregulated for each case when compared to controls.
Here, we presented a considerably improved version that, among other changes, uses a novel LP formulation to optimally embed pathway networks into compact 2D lattice grids and provides a more flexible and user-friendly interface including ready-to-use pre-arranged 2D grid representations of pathway collections for now six organisms.
For example, determining the optimal formulation and translation and manufacturing pathways for guest/host systems that can act as smart responsive coatings or sensing surfaces.
Recent advances in our understanding of innate immunity have led to the identification of immune pathways and adjuvant formulations more suitable for clinical advancement.
