DrugProt Silver Standard Knowledge Graph

DrugProt Silver Standard Knowledge Graph

Please cite if you use any DrugProt resource:
Antonio Miranda-Escalada, Farrokh Mehryary, Jouni Luoma, Darryl Estrada-Zavala, Luis Gasco, Sampo Pyysalo, Alfonso Valencia, Martin Krallinger, Overview of DrugProt task at BioCreative VII: data and methods for large-scale text mining and knowledge graph generation of heterogenous chemical–protein relations, Database, Volume 2023, 2023, baad080

@article{miranda2023overview,  title={Overview of DrugProt task at BioCreative VII: data and methods for large-scale text mining and knowledge graph generation of heterogenous chemical--protein relations},  author={Miranda-Escalada, Antonio and Mehryary, Farrokh and Luoma, Jouni and Estrada-Zavala, Darryl and Gasco, Luis and Pyysalo, Sampo and Valencia, Alfonso and Krallinger, Martin},  journal={Database},  volume={2023},  pages={baad080},  year={2023},  publisher={Oxford University Press UK} }
Miranda, Antonio, et al. "Overview of DrugProt BioCreative VII track: quality evaluation and large scale text mining of drug-gene/protein relations." Proceedings of the seventh BioCreative challenge evaluation workshop. 2021.

@inproceedings{miranda2021overview,  title={Overview of DrugProt BioCreative VII track: quality evaluation and large scale text mining of drug-gene/protein relations},  author={Miranda, Antonio and Mehryary, Farrokh and Luoma, Jouni and Pyysalo, Sampo and Valencia, Alfonso and Krallinger, Martin},  booktitle={Proceedings of the seventh BioCreative challenge evaluation workshop},  year={2021} }
Description

Files:

drugprot-silver-standard-kg.zip : JSON files with the relations predicted by the DrugProt systems and their precision
large_scale_network_abstracts.tsv : PubMed abstracts
large_scale_network_entities.tsv : CHEMICAL/drug and GENE/protein entities predicted by DrugProt NER Taggers
large_scale_network_pmids.txt : list of PMIDs

Related resources:

Web
DrugProt corpus
Evaluation library
Online evaluation (CodaLab)
Relation annotation guidelines
Gene and protein annotation guidelines
Chemicals and drugs annotation guidelines
FAQ
DrugProt Large Scale Additional SubTrack
DrugProt Large Scale document collection protocol