| bionlp-ost-19-BB-norm-ner-train | | | 2.45 K | | ldeleger | 2023-11-29 | Developing | |
| pubmed_test | | | 0 | | | 2023-11-29 | | |
| LitCovid-PD-MONDO | | | 2.26 M | | Jin-Dong Kim | 2023-11-24 | | |
| LitCovid-sample-docs | | A comprehensive literature resource on the subject of Covid-19 is collected by NCBI:
https://www.ncbi.nlm.nih.gov/research/coronavirus/
The LitCovid project@PubAnnotation is a collection of the titles and abstracts of the LitCovid dataset, for the people who want to perform text mining analysis. Please note that if you produce some annotation to the documents in this project, and contribute the annotation back to PubAnnotation, it will become publicly available together with contribution from other people.
If you want to contribute your annotation to PubAnnotation, please refer to the documentation page:
http://www.pubannotation.org/docs/submit-annotation/
The list of the PMID is sourced from here
Below is a notice from the original LitCovid dataset:
PUBLIC DOMAIN NOTICE
National Center for Biotechnology Information
This software/database is a "United States Government Work" under the
terms of the United States Copyright Act. It was written as part of
the author's official duties as a United States Government employee and
thus cannot be copyrighted. This software/database is freely available
to the public for use. The National Library of Medicine and the U.S.
Government have not placed any restriction on its use or reproduction.
Although all reasonable efforts have been taken to ensure the accuracy
and reliability of the software and data, the NLM and the U.S.
Government do not and cannot warrant the performance or results that
may be obtained by using this software or data. The NLM and the U.S.
Government disclaim all warranties, express or implied, including
warranties of performance, merchantability or fitness for any particular
purpose.
Please cite the authors in any work or product based on this material :
Chen Q, Allot A, & Lu Z. (2020) Keep up with the latest coronavirus research, Nature 579:193
| 0 | | Jin-Dong Kim | 2023-11-29 | Uploading | |
| GlycoBiology-NCBITAXON | | NCBITAXON-based annotation to GlycoBiology abstracts | 32.7 K | | shuo50 | 2023-11-29 | Testing | |
| Erin_test | | @ Yonsei University | 0 | Erin | ErinHJ_Kim | 2023-11-29 | Testing | |
| DocumentLevelAnnotationSample | | A sample project for document level annotation | 47 | | Jin-Dong Kim | 2023-11-29 | Testing | |
| Training_Data_Portuguese_pt_en | | | 0 | | wmtbio | 2023-11-29 | Developing | |
| silkwormbase | | | 10 K | | sakaniwa | 2023-11-29 | Testing | |
| semrep-sample | | Sample annotation of SemRep, produced by Rindflesch, et al.
Rindflesch, T.C. and Fiszman, M. (2003). The interaction of domain knowledge and linguistic structure in natural language processing: interpreting hypernymic propositions in biomedical text. Journal of Biomedical Informatics, 36(6):462-477. | 11.1 K | Rindflesch et al. | Jin-Dong Kim | 2023-11-29 | Testing | |
| bionlp-st-2016-SeeDev-dev | | Entities and event annotations from the development set of the BioNLP-ST 2016 SeeDev task.
SeeDev task focuses on seed storage and reserve accumulation on the model organism, Arabidopsis thaliana. The SeeDev task is based on the knowledge model Gene Regulation Network for Arabidopsis (GRNA) that meets the needs of text-mining (i.e. manual annotation of texts and automatic information extraction), experimental data indexing and retrieval and reuse in other plant systems. It is also expected to meet the requirements of the integration of the text knowledge with knowledge derived from experimental data in view of modeling in systems biology.
GRNA model defines 16 different types of entities, and 22 types of event (in five sets of event types) that may be combined in complex events.
For more information, please refer to the task website
All annotations :
Train set
Development set
Test set (without events)
| 61 | | EstelleChaix | 2023-11-29 | Released | |
| bionlp-ost-19-BB-rel-ner-test | | | 125 | | ldeleger | 2023-11-24 | Developing | |
| MicrobeTaxon | | | 1.23 K | | Yo Shidahara | 2023-11-26 | Testing | |
| tagtog-demo | | demo documents produced by tagtog annotations | 262 | | tagtog | 2023-11-27 | Developing | |
| test1 | | test1 | 21 | H. S. Park | Sophie Nam | 2023-11-26 | Testing | |
| name_no | | | 3.33 K | | zhoukaiyin | 2023-11-28 | | |
| ykjeong_test | | pub_annotation_test | 276 | | | 2023-11-28 | Testing | |
| 2015-BEL-Sample-2 | | The 295 BEL statements for sample set used for the 2015 BioCreative challenge. | 11.4 K | Fabio Rinaldi | Nico Colic | 2023-11-28 | Released | |
| PIR-corpus2 | | The protein tag was used to tag proteins, or protein-associated or -related objects, such as domains, pathways, expression of gene.
Annotation guideline: http://pir.georgetown.edu/pirwww/about/doc/manietal.pdf | 5.52 K | University of Delaware and Georgetown University Medical Center | Yue Wang | 2023-11-29 | Released | |
| BioLarkPubmedHPO | | 228 abstracts manually annotated with Human Phenotype Ontology (HPO) concepts and harmonized by three curators, which can be used as a reference standard for free text annotation of human phenotypes. For more info, please see Groza et al. "Automatic concept recognition using the human phenotype ontology reference and test suite corpora", 2015. | 7.16 K | Tudor Groza | simon | 2023-11-29 | Released | |
