zebrafishPMID {zebrafish}R Documentation

Mappings between probe identifiers and PubMed identifiers


PubMed http://www.ncbi.nlm.nih.gov/PubMed/ includes over 14 million citations for biomedical articles back to the 1950's. Each article has a unique PubMed identifier. zebrafishPMID maps probe identifiers to PubMed identifier for publications that cited the genes represented by the probe identifiers


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

Mappings were based on data provided by:

LocusLink:ftp://ftp.ncbi.nih.gov/refseq/LocusLink/LL_tmpl.gz. Built: September 16, 2004

Package built Fri Sep 17 09:37:03 2004




    # Convert the environment to a list
    xx <- as.list(zebrafishPMID)
    if(length(xx) > 0){
        # The probe ids for the first two elements of XX
        # Get the first one
        if(interactive() && !is.null(xx[[1]]) && !is.na(xx[[1]])
           && require(annotate)){
            # Gets article information as XML files
            xmls <- pubmed(xx[[1]], disp = "data")
            # Views article information using a browser
            pubmed(xx[[1]], disp = "browser")

[Package zebrafish version 1.6.5 Index]