| LitCovid-OGER-BB | | Using OGER (www.ontogene.com) and Biobert to obtain annotations for 10 different vocabularies. | 308 K | Fabio Rinaldi | Nico Colic | 2020-06-04 | Released | |
| bionlp-st-ge-2016-reference-tees | | NER and event extraction produced by TEES (with the default GE11 model) for the 20 full papers used in the BioNLP 2016 GE task reference corpus. | 14.6 K | Nico Colic | Nico Colic | 2020-09-13 | Released | |
| bionlp-st-ge-2016-test-tees | | NER and event extraction produced by TEES (with the default GE11 model) for the 14 full papers used in the BioNLP 2016 GE task test corpus. | 9.17 K | Nico Colic | Nico Colic | 2020-09-18 | Released | |
| bionlp-st-ge-2016-spacy-parsed | | Dependency parses produced by spaCy parser, and part-of-speech tags produced by Stanford tagger (with the wsj-0-18-left3words-nodistsim model). The exact procedure is described here. Data set contains the 34 full paper articles used in the BioNLP 2016 GE task.
| 225 K | Nico Colic | Nico Colic | 2020-09-18 | Released | |
| craft-sa-dev | | Development data for CRAFT SA shared task. This project contains the development (training) annotations for the Structural Annotation task of the CRAFT Shared Task 2019. This particular set contains token and sentence annotations with tokens linked via dependency relations. These dependency relations were automatically generated using the manually curated CRAFT constituency treebank files as input. | 490 K | University of Colorado Anschutz Medical Campus | craft-st | 2020-09-21 | Released | |
| DisGeNET | | Disease-Gene association annotation. | 3.12 M | Nuria Queralt | Jin-Dong Kim | 2016-01-28 | Beta | |
| PubCasesHPO | | HPO annotation in PubCases | 3.2 M | | Toyofumi Fujiwara | 2017-09-06 | Beta | |
| PubCasesORDO | | ORDO annotation in PubCases | 869 K | | Toyofumi Fujiwara | 2017-09-14 | Beta | |
| LitCovid-PAS-Enju | | Predicate-argument structure annotation produced by the Enju parser. | 125 K | | Jin-Dong Kim | 2020-03-25 | Beta | |
| PubmedHPO | | Human phenotype annotation to PubMed abstracts, based on the HPO ontology | 12.4 M | Tudor Groza | tudor | 2020-04-01 | Beta | |
| bionlp-st-ge-2016-uniprot | | UniProt protein annotation to the benchmark data set of BioNLP-ST 2016 GE task: reference data set (bionlp-st-ge-2016-reference) and test data set (bionlp-st-ge-2016-test).
The annotations are produced based on a dictionary which is semi-automatically compiled for the 34 full paper articles included in the benchmark data set (20 in the reference data set + 14 in the test data set).
For detailed information about BioNLP-ST GE 2016 task data sets, please refer to the benchmark reference data set (bionlp-st-ge-2016-reference) and benchmark test data set (bionlp-st-ge-2016-test).
| 16.2 K | DBCLS | Jin-Dong Kim | 2020-09-18 | Beta | |
| NEUROSES | | This corpus is composed of PubMed articles containing cognitive enhancers and anti-depressants drug mentions. The selected sentences are automatically annotated using the NCBO Annotator with the Chemical Entities of Biological Interest (CHEBI) and Phenotypic Quality Ontology (PATO) ontologies, we also produced annotations using PhenoMiner ontology via a dictionary-based tagger. | 2.14 M | | nestoralvaro | 2020-09-18 | Beta | |
| IMDB-NLP | | Annotations for chunking and semantic role labeling based on in-memory databases. | 0 | | | 2016-05-06 | Uploading | |
| OryzaGP | | A dataset for Named Entity Recognition for rice gene | 29.1 K | Huy Do and Pierre Larmande | Yue Wang | 2019-03-13 | Uploading | |
| relna | | https://www.tagtog.net/jmcejuela/relna | 2.77 K | Ashish Baghudana and Juan Miguel Cejuela | tagtog | 2015-11-25 | Developing | |
| uniprot-mouse | | Protein annotation based on UniProt | 11.5 K | | Jin-Dong Kim | 2016-04-27 | Developing | |
| PubMed-2017 | | abstracts published in 2017. | 0 | | Jin-Dong Kim | 2017-09-01 | Developing | |
| PubMed-2000 | | abstracts published in 2000. | 0 | | Jin-Dong Kim | 2017-09-01 | Developing | |
| GlycoGenes | | annotation for glyco-genes based on GGDB | 1.01 K | | Jin-Dong Kim | 2017-09-15 | Developing | |
| AGCA_Sue | | Active Gene Annotation Corpus for the Application in Drug Repurposing Discovery | 0 | Jingbo Xia, Xuan Qin, Kaiyin Zhou | | 2017-11-13 | Developing | |
