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DrugProt corpus genes and proteins annotation guidelines [GPRO - Biocreative 5.2]

Rabal, Obdulia; Krallinger, Martin


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  <dc:creator>Rabal, Obdulia</dc:creator>
  <dc:creator>Krallinger, Martin</dc:creator>
  <dc:date>2021-06-15</dc:date>
  <dc:description>Annotation guidelines used for the annotations of gene and protein-related objects of the CHEMDNER, ChemProt and DrugProt corpora.

 

Please cite if you use any DrugProt resource:

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}
}

 

 

Introduction

The annotation guidelines have been refined after iterative cycles of annotations of sample documents. It also incorporated suggestions made by curators as well as observations of annotation inconsistencies encountered when comparing results from different human curators.

In brief, the annotated GPROs include genes, gene products
(proteins, RNA), DNA/protein sequence elements and protein families, domains and complexes. The aim of the iterative manual annotation cycles was to improve the quality and consistency of the guidelines, in order to make them more intuitive and easier to follow.

 

Please, cite:

@article{perez2016markyt, title={The Markyt visualisation, prediction and benchmark platform for chemical and gene entity recognition at BioCreative/CHEMDNER challenge}, author={P{\'e}rez-P{\'e}rez, Martin and P{\'e}rez-Rodr{\'\i}guez, Gael and Rabal, Obdulia and Vazquez, Miguel and Oyarzabal, Julen and Fdez-Riverola, Florentino and Valencia, Alfonso and Krallinger, Martin and Louren{\c{c}}o, An{\'a}lia}, journal={Database}, volume={2016}, year={2016}, publisher={Oxford Academic}}

 

Related Resources:


	Web
	DrugProt corpus
	Evaluation library
	Online evaluation (CodaLab)
	Relation annotation guidelines
	Gene and protein annotation guidelines
	Chemicals and drugs annotation guidelines
	DrugProt Silver Standard Knowledge Graph
	FAQ
	DrugProt Large Scale Additional SubTrack
	DrugProt Large Scale document collection protocol
</dc:description>
  <dc:identifier>https://zenodo.org/record/4957577</dc:identifier>
  <dc:identifier>10.5281/zenodo.4957577</dc:identifier>
  <dc:identifier>oai:zenodo.org:4957577</dc:identifier>
  <dc:language>eng</dc:language>
  <dc:relation>doi:10.5281/zenodo.4957576</dc:relation>
  <dc:relation>url:https://zenodo.org/communities/medicalnlp</dc:relation>
  <dc:rights>info:eu-repo/semantics/openAccess</dc:rights>
  <dc:rights>https://creativecommons.org/licenses/by/4.0/legalcode</dc:rights>
  <dc:subject>NLP</dc:subject>
  <dc:subject>biomedical NLP</dc:subject>
  <dc:subject>biocreative</dc:subject>
  <dc:subject>NER</dc:subject>
  <dc:title>DrugProt corpus genes and proteins annotation guidelines [GPRO - Biocreative 5.2]</dc:title>
  <dc:type>info:eu-repo/semantics/article</dc:type>
  <dc:type>publication-article</dc:type>
</oai_dc:dc>
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