All post-translational interactions from OmniPath

Imports interactions from all post-translational datasets of OmniPath. The datasets are "omnipath", "kinaseextra", "pathwayextra" and "ligrecextra".

Usage

import_post_translational_interactions(
  resources = NULL,
  organism = 9606,
  exclude = NULL,
  references_by_resource = TRUE,
  ...
)

Arguments

resources

interactions not reported in these databases are removed. See get_interaction_resources for more information.

organism

Interactions are available for human, mouse and rat. Choose among: 9606 human (default), 10116 rat and 10090 Mouse

exclude

Character: datasets or resources to exclude.

references_by_resource

if FALSE, removes the resource name prefixes from the references (PubMed IDs); this way the information which reference comes from which resource will be lost and the PubMed IDs will be unique.

...

optional additional arguments

Value

A dataframe containing post-translational interactions

See also

• get_interaction_resources

• import_all_interactions

• interaction_graph

• print_interactions

Examples

interactions <-
    import_post_translational_interactions(
        resources = c('BioGRID')
    )