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Retrieve the number of database links from Europe PMC publication database

Source: R/epmc_db_count.r
epmc_db_count.Rd

This function returns the number of EBI database links associated with a publication.

Usage

epmc_db_count(ext_id = NULL, data_src = "med")

Arguments

ext_id

character, publication identifier

data_src

character, data source, by default Pubmed/MedLine index will be searched.

Value

data.frame with counts for each database

Details

Europe PMC supports cross-references between literature and the following databases:

'ARXPR'

Array Express, a database of functional genomics experiments

'CHEBI'

a database and ontology of chemical entities of biological interest

'CHEMBL'

a database of bioactive drug-like small molecules

'EMBL'

now ENA, provides a comprehensive record of the world's nucleotide sequencing information

'INTACT'

provides a freely available, open source database system and analysis tools for molecular interaction data

'INTERPRO'

provides functional analysis of proteins by classifying them into families and predicting domains and important sites

'OMIM'

a comprehensive and authoritative compendium of human genes and genetic phenotypes

'PDB'

European resource for the collection, organisation and dissemination of data on biological macromolecular structures

'UNIPROT'

comprehensive and freely accessible resource of protein sequence and functional information

'PRIDE'

PRIDE Archive - proteomics data repository

Examples

  if (FALSE) { # \dontrun{
  epmc_db_count(ext_id = "10779411")
  epmc_db_count(ext_id = "PMC3245140", data_src = "PMC")
  } # }