| LitCovid-PAS-Enju | | Predicate-argument structure annotation produced by the Enju parser. | 125 K | | Jin-Dong Kim | 2023-11-28 | Beta | |
| LitCovid-sample-PD-FMA | | | 1.93 K | | Jin-Dong Kim | 2023-11-28 | 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 | 2023-11-28 | Beta | |
| sonoma2 | | sonoma2 | 9.09 K | Standigm | chanung | 2023-11-29 | 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 | 2023-11-29 | Beta | |
| TEST-ChemicalEntity | | ChemicalEntity : Annotated by PD-MeSH2022_CHEBI_tuned-B | 827 | | yucca | 2023-11-29 | Beta | |
| LitCovid-sample-PD-GO-BP-0 | | | 708 | | Jin-Dong Kim | 2023-11-29 | Beta | |
| LitCovid-sample-PD-NCBITaxon | | | 1.35 K | | Jin-Dong Kim | 2023-11-29 | Beta | |
| LitCovid-sample-sentences | | | 2.3 K | | Jin-Dong Kim | 2023-11-29 | Beta | |
| Mabel_2 | | | 0 | | Grati | 2025-07-16 | Beta | |
| IU_X-Ray_Raw | | IU X-Ray data selected for the Hidden-RAD shared task.
It consists of 1,085 data considering the criteria below:
1. Text field condition: at least one of the four fields (MeSH, Problems, Findings, Impression) must contain one term from 36 selected key terms defined by Hidden-RAD.
2. Key Term Constraints: Each field must contain no more than 3 key terms; at least one key term must be present across all fields; one key term must present in either 'Findings' or 'Impression'
3. Exclusion Criteria: Reports containing the following clinically ambiguous or non-diagnostic terms must be excluded - blunt, calcifications, fractures, hazy, infiltrate, status post operation, thickening, tortuous | 0 | | kenkim2 | 2025-09-15 | 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 | 2023-11-24 | Uploading | |
| LitCovid-sample-Pubtator | | | 3.86 K | | Jin-Dong Kim | 2023-11-28 | Uploading | |
| chemicals | | | 0 | | pruas_18 | 2023-11-29 | Uploading | |
| pubmed-enju-pas | | Annotating PubMed abstracts for predicate-argument structure (PAS). Enju 2.4.2 is used to automatically compute PAS. | 19.1 M | Enju | Jin-Dong Kim | 2023-11-24 | Developing | |
| Allie | | An annotation set of abbreviations and expanded forms extracted from PubMed/MEDLINE by machines. | 8.7 M | Database Center for Life Science | Yasunori Yamamoto | 2023-11-24 | Developing | |
| LitCovid-sentences | | | 5.63 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
| LitCovid-PD-CLO | | | 3.73 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
| LitCovid-PMC-OGER-BB | | Annotating PMC articles with OGER and BioBert, according to an hand-crafted Covid-specific dictionary and the 10 different CRAFT ontologies (http://bionlp-corpora.sourceforge.net/CRAFT/):
Chemical Entities of Biological Interest (CHEBI),
Cell Ontology (CL),
Entrez Gene (UBERON),
Gene Ontology (biological process (GO-BP), cellular component (GO-CC), and molecular function (GO-MF),
NCBI Taxonomy (NCBITaxon),
Protein Ontology (PR),
Sequence Ontology (SO) | 3.14 M | Fabio Rinaldi | Nico Colic | 2023-11-24 | Developing | |
