Is there a way to filter Pubmed search based on Citation index of the articles or Is there a way to retrieve an articles's citation index in pubmed

Question

[vigprasud]

Is there a way to retrieve an article's citation index via Pubmed or Pubmed's eutils or any other way in Pubmed/Entrez? Or a way to filter the search results based on citation index in pubmed?

Answer 1

[David W]

If by "citation index" you mean the number of times a paper is cited, then not really. The closest you'll come is the number of citations indexed in Pubmed Central. Using R:

library(rentrez)

get_pmc_cites <- function(pmid){
    res <- entrez_link(db="pmc", dbfrom="pubmed", id=pmid)
    return(length(res$pubmed_pmc_refs))
 }
get_pmc_cites(20203609)
# [1] 25

EDIT

Just noticed the summary xmls for pubmed have the PMC reference count, which might make multiple calls quicker:

recs <- entrez_summary(db="pubmed", id=c(20203609, 20203610))
sapply(rec, "[[", "PmcRefCount")
# [1] 25 200

[vigprasud]

Is there other literature databases that has citation index other than pubmed?

[David W]

Not that I know of. Last time I looked at something like this I found the scopus api doesn't really work for this, Web Of Science is closed and Google Scholar has no api and has terms that expressly forbid scraping their html.

[vigprasud]

Ohk. Thanks again.

Answer 2

[Crunk]

This script helps find the newest paper on Pubmed by query and count the cited of each article. The result is an HTML table. This is its web app version. The source code can be found in here.