Biodiversity PMC PMID to DOI API

Description

This API retrieves Digital Object Identifiers (DOIs) associated with PubMed IDs (PMIDs) from MEDLINE. You can submit a batch of up to 1,000 PMIDs in a single request. The API returns a JSON response, with an array containing objects, where each object represents a PMID-DOI mapping. The doi field may be null if no DOI is found in MEDLINE for the given PMID. The warnings section indicates PMIDs that were not found in MEDLINE.

API endpoint

URL: biodiversitypmc.sibils.org/api/pmid2doi

Mandatory input: the list of PMIDs (&pmids=). PMIDs are separated by commas.

Example: map PMIDs from MEDLINE https://biodiversitypmc.sibils.org/api/pmid2doi?pmids=38060177,14691011,456

Code sample

python script for demonstrating POST calls to the API

import requests # not installed in default Python
import json

# PMIDs to fetch (limited to 1000)
pmids = "38060177,14691011,456"

# call with POST
url_API = "https://biodiversitypmc.sibils.org/api/pmid2doi"
my_params = {"pmids": pmids} # parameters dictionary
r = requests.post(url = url_API, data = my_params)

# get response and print in output
response = r.text
with open("SIBiLS_pmid2doi_mapping.json","w",encoding="utf-8") as file:
   file.write(r.text)

Output

Output is json formatted :

{
  "sibils_version": "v4.2.5.5",
  "success": true,
  "error": "",
  "warning": "", [Contains PMIDs that were not found in MEDLINE (text)]
  "collection": "medline",
  "mapping": [
    {
      "pmid": "14691011",
      "doi": "10.1210/en.2003-0985"
    },
    {
      "pmid": "38060177",
      "doi": "10.1007/978-1-0716-3577-3_2"
    },
    {
      "pmid": "456",
      "doi": null [MAY BE NULL]
    }
  ]
}