WebofMicrobes analyzing the chemistry between microbes

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Environment Details

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Compatibility score calculations

With scoring, the organisms (table columns) fall into two categories: "reference" organism or "scored" organism. Only one reference organism can be selected at a time. All other columns then become scored organisms. The scored organisms will have a score in the column header in relation to the reference organisms.

Environmental Uptake Score (EUS)

The EUS is the fraction of metabolites that an organism uptakes from the starting metabolite pool ("The Environment", the untransformed control). These scores are displayed when "The Environment" is selected as the reference organism and is calculated as

metabolites decreased by the scored organism / metabolites present in The Environment

Organismal Compatibility Scores (OCS)

For each individual organism, two scores are calculated for use in predicting potential compatibility of each partner organism in culture with the selected reference organism

Fraction of Metabolites under Competition (FMC)

The FMC represents the fraction of metabolites for which the scored organism may compete with the reference organism. The FMC is calculated as

metabolites decreased by both organisms / metabolites decreased by scored organism

Fraction of Metabolites for potential Exchange (FME)

The FME is the fraction of metabolites that are used (decreased) by the scored organism that have potential for exchange in benefit to the scored organism. It is calculated as

metabolites decreased by scored organism and increased by reference organism / metabolites decreased by scored organism

Observed Actions on Metabolites

 
>16-fold decrease >8 >4 >2 >1 no change >1 >2 >4 >8 >16-fold increase
  Present in environment   Not Detected No data
Reference for affinity score calculations

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