Downloads transcriptional and post-transcriptional regulatory interactions
from the RegNetwork database (http://www.regnetworkweb.org/). The
information about effect signs (stimulation or inhibition), provided by
regnetwork_directions are included in the result.
Examples
regn_interactions <- regnetwork_download()
#> Warning: The server at regnetworkweb.org missed to send the InCommon RSA Server CA certificate that is required for the verification of the server`s identity and establishment of a TLS connection. You can work around this issue by adding the InCommon RSA Server CA certificate to the trusted certificate store which is used by the R `curl` package. Now we raise only a warning and return an empty data frame. The original error: SSL peer certificate or SSH remote key was not OK: [regnetworkweb.org] SSL certificate problem: unable to get local issuer certificate
regn_interactions
#> # A tibble: 0 × 4
#> # ℹ 4 variables: source_genesymbol <chr>, source_entrez <chr>,
#> # target_genesymbol <chr>, target_entrez <chr>
# # A tibble: 372,778 x 7
# source_genesymb. source_entrez target_genesymb. target_entrez
# <chr> <chr> <chr> <chr>
# 1 USF1 7391 S100A6 6277
# 2 USF1 7391 DUSP1 1843
# 3 USF1 7391 C4A 720
# 4 USF1 7391 ABCA1 19
# 5 TP53 7157 TP73 7161
# # . with 372,768 more rows, and 3 more variables: effect <dbl>,
# # source_type <chr>, target_type <chr>