Overview of Inter-Species Comparisons in Pathway Tools
Pathway Tools offers an array of powerful functions. Some of
these are available only in the desktop mode of operation (requires installing
MetaCyc plus Pathway Tools locally), whereas others are available only in
the Web mode of operation. Some capabilities are available in both modes.
The following examples demonstrate
some of these functions for inter-species comparisons.
1. Comparative Tables: A Diverse Array of Global Comparisons
Description: Many tables containing comparative statistics of two different
Pathway/Genome Databases can be generated through the Web mode of Pathway Tools.
To access: use the Web command Tools -> Comparative Analysis.
2. Global Comparisons: Comparing Overall Metabolic Maps between Organisms
Description: In the desktop version of PathwayTools,
the Metabolic Overview mode can be used to highlight all reactions shared or not with any/all members of a group
of organism databases specified by the user. This highlighting allows you to perform global comparative analyses, that is,
comparing the metabolic overview of the current organism against those of one or more other organisms.
Application: A typical use of such analyses is in the development of
antimicrobial drugs. When an antimicrobial agent is designed to target a
specific metabolic enzyme/reaction, this analysis can computationally predict
the spectrum of action across the organisms for which databases are provided.