| spacy-test | | Random set of articles used for testing in the development of the RESTful spaCy parsing web service. Since development is now finished, they are released for the community to use. | 131 K | Nico Colic | Nico Colic | 2021-03-10 | Released | |
| DisGeNET5_gene_disease | | The file contains gene-disease associations obtained by text mining MEDLINE abstracts using the BeFree system including the gene and disease off sets. | 2.04 M | IBI Group | Yue Wang | 2021-03-11 | Released | |
| LitCovid-docs-s | | | 0 | | Jin-Dong Kim | 2021-10-18 | Released | |
| LitCovid-OGER-BB | | Using OGER (www.ontogene.com) and Biobert to obtain annotations for 10 different vocabularies. | 308 K | Fabio Rinaldi | Nico Colic | 2021-10-18 | Released | |
| Zoonoses_partialAnnotation | | This is a part of Zoonoses project used by PanZoora. But Zoonoses project provides whole manual annotated data but this is partial ones. | 266 | | AikoHIRAKI | 2021-12-01 | Released | |
| TEST-DiseaseOrPhenotypicFeature | | Annotated by Mesh_All_FN | 795 | | Eisuke Dohi | 2021-12-23 | Released | |
| geneset_names | | | 0 | | alo33 | 2022-04-26 | Released | |
| Inflammaging | | Inflammation axis | 23.4 M | | alo33 | 2022-06-08 | Released | |
| CORD-19-PD-MONDO | | PubDictionaries annotation for MONDO terms - updated at 2020-04-30
It is disease term annotation based on MONDO.
Version 2020-04-20.
The terms in MONDO are loaded in PubDictionaries, with which the annotations in this project are produced. The parameter configuration used for this project is here.
Note that it is an automatically generated dictionary-based annotation. It will be updated periodically, as the documents are increased, and the dictionary is improved. | 6.32 M | | Jin-Dong Kim | 2022-06-14 | Released | |
| LitCovid-OGER | | Using OGER (http://www.ontogene.org/resources/oger) to detect entities from 10 different vocabularies | 9.31 K | Fabio Rinaldi | Nico Colic | 2022-09-01 | Released | |
| LitCovid-PAS-Enju | | Predicate-argument structure annotation produced by the Enju parser. | 125 K | | Jin-Dong Kim | 2020-03-25 | 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 | 2020-10-02 | Beta | |
| LitCovid-sample-sentences | | | 2.3 K | | Jin-Dong Kim | 2021-01-14 | Beta | |
| LitCovid-sample-PD-FMA | | | 1.93 K | | Jin-Dong Kim | 2021-01-14 | Beta | |
| LitCovid-sample-PD-IDO | | | 1.27 K | | Jin-Dong Kim | 2021-01-14 | Beta | |
| LitCovid-sample-PD-UBERON | | PubDictionaries annotation for UBERON terms - updated at 2020-04-30
It is annotation for anatomical entities based on Uberon.
The terms in Uberon are uploaded in PubDictionaries
(Uberon),
with which the annotations in this project are produced.
The parameter configuration used for this project is
here.
Note that it is an automatically generated dictionary-based annotation.
It will be updated periodically, as the documents are increased, and the dictionary is improved.
| 310 | | Jin-Dong Kim | 2021-01-14 | Beta | |
| LitCovid-sample-PD-NCBITaxon | | | 1.35 K | | Jin-Dong Kim | 2021-01-14 | Beta | |
| LitCovid-sample-PD-GO-BP-0 | | | 708 | | Jin-Dong Kim | 2021-01-16 | 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 | 2021-03-10 | Beta | |
| PubCasesORDO | | ORDO annotation in PubCases | 865 K | | Toyofumi Fujiwara | 2021-03-11 | Beta | |
