Published July 21, 2021 | Version 1.0
Journal article Open

DrugProt Large-Scale Text Mining corpus: Biocreative VII Track 1 - Text mining drug and chemical-protein interactions

  • 1. Barcelona Supercomputing Center
  • 2. University of Turku


This Zenodo contains the BioCreative VII Large scale DrugProt Additional Subtrack abstracts and entity annotations.



  • large_scale_abstracts.tsv This file contains plain-­text, UTF8-­encoded, NFC normalized DrugProt PubMed records in a tab­ ‐ separated format. In total 2366081 records are provided, where each line in the fails contains a single PMID, title and abstract separated by tabulators. Due to PubMed inconsistencies, there is a minor percentage of duplicated records. Indeed, we have identified 222 records with different PMID but the same abstract title and body.


Entity mention annotations

  • large_scale_entities.tsv. This file contains the automatically labeled mention annotations of chemical compounds and genes/proteins (so-­called gene and protein-related objects as defined during BioCreative V) generated for the Large Scale records. There are 53993602 entity annotations.


Related resources:


Files (1.9 GB)

Name Size Download all
1.9 GB Preview Download