The very basics of PubMed search using rentrez

basic_rentrez.R

library(rentrez)

# search for "epigenetics"
es <- entrez_search("pubmed", "epigenetics")
es$count
[1] 20759

# search for "epigenetics" published in 2014
# for all publications in 2014 just drop the "epigenetics"
es <- entrez_search("pubmed", "epigenetics 2014[dp]")
es$count
[1] 3338

# in Nature
es <- entrez_search("pubmed", "epigenetics 2014[dp] Nature[ta]")
es$count
[1] 25

# for all publications in 2014 just drop the "epigenetics"
es <- entrez_search("pubmed", "2014[dp]")
es$count
[1] 1199669

# get a summary for a publication ID
es <- entrez_search("pubmed", "epigenetics 2014[dp]")
# 20 IDs by default
es$ids
 [1] "26807331" "26567096" "26484155" "26484145" "26484140" "26484114" "26464963" "26461333" "26442173"
[10] "26317049" "26255941" "26201320" "26089608" "26012316" "25976256" "25969372" "25960869" "25905376"
[19] "25878004" "25873785"

# summary of the first ID
esum <- entrez_summary("pubmed", es$ids[1])

# the journal
esum$source
[1] "Hereditary Genet"