rbioapi: rba_uniprot_proteins_crossref – R documentation

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rba_uniprot_proteins_crossref

Get UniProt Entry by UniProt Cross-Reference Database and ID

Description

UniProt Cross-Reference links protein Entities with cross-reference (external) databases. Using this function, you can retrieve a UniProt entity using external database name and protein ID in that database.

Usage

rba_uniprot_proteins_crossref(db_id, db_name, reviewed = NA, isoform = NA, ...)

Arguments

`db_id`	The protein ID in the cross-reference (external) database.
`db_name`	cross-reference (external database) name.
`reviewed`	Logical: (Optional) If TRUE, only returns "UniProtKB/Swiss-Prot" (reviewed) entries; If FALSE, only returns TrEMBL (un-reviewed) entries.
`isoform`	Numeric: (Optional) you have two options: 0: Exclude isoforms. 1: Return isoforms only. see: Alternative products
`...`	rbioapi option(s). Refer to `rba_options`'s arguments documentation for more information on available options.

Value

List which each element is a UniProt entity that correspond to your provided cross-reference database name and ID.

Corresponding API Resources

"GET https://www.ebi.ac.uk/proteins/api/proteins/dbtype:dbid"

References

Andrew Nightingale, Ricardo Antunes, Emanuele Alpi, Borisas Bursteinas, Leonardo Gonzales, Wudong Liu, Jie Luo, Guoying Qi, Edd Turner, Maria Martin, The Proteins API: accessing key integrated protein and genome information, Nucleic Acids Research, Volume 45, Issue W1, 3 July 2017, Pages W539–W544, https://doi.org/10.1093/nar/gkx237
Proteins API Documentation

Examples

rba_uniprot_proteins_crossref("cd40", "hgnc")


rba_uniprot_proteins_crossref("cd40", "hgnc", reviewed = TRUE)


rba_uniprot_proteins_crossref("mica", "hgnc", isoform = 0)

rbioapi

User-Friendly R Interface to Biologic Web Services' API

v0.7.0

GPL-3

Authors

Moosa Rezwani [aut, cre, cph]

Initial release