Causal effect enzyme-PTM interactions

Enzyme-substrate data does not contain sign (activation/inhibition), we generate this information based on the interaction network.

Usage

signed_ptms(
  enzsub = enzyme_substrate(),
  interactions = omnipath_interactions()
)

Arguments

enzsub

Enzyme-substrate data frame generated by enzyme_substrate

interactions

interaction data frame generated by an OmniPath interactions query: omnipath-interactions

Value

Data frame of enzyme-substrate relationships with is_inhibition and is_stimulation columns.

See also

• enzyme_substrate

• omnipath-interactions

Examples

enzsub <- enzyme_substrate(resources = c("PhosphoSite", "SIGNOR"))
interactions <- omnipath_interactions()
enzsub <- signed_ptms(enzsub, interactions)