signed_ptms: Causal effect enzyme-PTM interactions

In saezlab/OmnipathR: OmniPath web service client and more

Causal effect enzyme-PTM interactions

Description

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)

saezlab/OmnipathR documentation built on Oct. 16, 2024, 11:49 a.m.