celegansPMID {celegans.db} | R Documentation

## Map between Manufacturer Identifiers and PubMed Identifiers

### Description

celegansPMID is an R object that provides mappings between manufacturer identifiers and PubMed identifiers.

### Details

Each manufacturer identifier is mapped to a named vector of PubMed identifiers. The name associated with each vector corresponds to the manufacturer identifier. The length of the vector may be one or greater, depending on how many PubMed identifiers a given manufacturer identifier is mapped to. An `NA` is reported for any manufacturer identifier that cannot be mapped to a PubMed identifier.

Titles, abstracts, and possibly full texts of articles can be obtained from PubMed by providing a valid PubMed identifier. The pubmed function of annotate can also be used for the same purpose.

Mappings were based on data provided by: Entrez Gene ( ftp://ftp.ncbi.nlm.nih.gov/gene/DATA ) on 2009-Mar11

### References

http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed

### Examples

            x <- celegansPMID
            # Get the probe identifiers that are mapped to any PubMed ID
            mapped_probes <- mappedkeys(x)
            # Convert to a list
            xx <- as.list(x[mapped_probes])
        if(length(xx) > 0){
            # Get the PubMed identifiers for the first two probe identifiers
            xx[1:2]
            # Get the first one
            xx[[1]]
            if(interactive() && !is.null(xx[[1]]) && !is.na(xx[[1]])
               && require(annotate)){
                # Get article information as XML files
                xmls <- pubmed(xx[[1]], disp = "data")
                # View article information using a browser
                pubmed(xx[[1]], disp = "browser")
            }
        }

[Package celegans.db version 2.2.11 Index]