| LitCovid-PubTatorCentral | | Named-entities for the documents in the LitCovid dataset. Annotations were automatically predicted by the PubTatorCentral tool (https://www.ncbi.nlm.nih.gov/research/pubtator/) | 4.64 K | | zebet | 2023-11-27 | Released | |
| LitCovid-PubTator | | | 5.88 M | | Jin-Dong Kim | 2023-11-24 | Beta | |
| 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 | |
| LitCovid-PD-UBERON | | | 540 K | | Jin-Dong Kim | 2023-11-29 | | |
| LitCovid-PD-MONDO-v1 | | PubDictionaries annotation for disease terms - updated at 2020-04-20
It is 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. | 13.4 K | | Jin-Dong Kim | 2023-11-29 | Released | |
| LitCovid-PD-MONDO | | | 2.26 M | | Jin-Dong Kim | 2023-11-24 | | |
| LitCovid-PD-HP-v1 | | PubDictionaries annotation for human phenotype terms - updated at 2020-04-20
Disease term annotation based on HP.
Version 2020-04-20.
The terms in HP 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. | 3.03 K | | Jin-Dong Kim | 2023-11-29 | Released | |
| LitCovid-PD-HP | | | 922 K | | Jin-Dong Kim | 2023-11-28 | Beta | |
| LitCovid-PD-GO-BP | | Terms for biological prosesses, as defined in GO | 374 K | | Jin-Dong Kim | 2023-11-29 | Developing | |
| LitCovid-PD-GlycoEpitope | | | 999 | | Jin-Dong Kim | 2023-11-29 | Developing | |
| LitCovid-PD-FMA-UBERON-v1 | | PubDictionaries annotation for anatomy terms - updated at 2020-04-20
Disease term annotation based on FMA and Uberon. Version 2020-04-20.
The terms in FMA and Uberon are loaded in PubDictionaries
(FMA and
Uberon), with which the annotations in this project are produced.
The parameter configuration used for this project is
here for FMA and
there for Uberon.
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. | 4.3 K | | Jin-Dong Kim | 2023-11-27 | Released | |
| LitCovid-PD-FMA-UBERON | | | 1.3 M | | Jin-Dong Kim | 2023-11-28 | Developing | |
| LitCovid-PD-CLO | | | 3.73 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
| LitCovid-PD-CHEBI | | | 1.43 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
| LitCovid-PAS-Enju | | Predicate-argument structure annotation produced by the Enju parser. | 125 K | | Jin-Dong Kim | 2023-11-28 | Beta | |
| LitCovid-OGER-BB | | Using OGER (www.ontogene.com) and Biobert to obtain annotations for 10 different vocabularies. | 308 K | Fabio Rinaldi | Nico Colic | 2023-11-28 | 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 | 2023-11-29 | Released | |
| LitCovid-manual | | | 540 | | Jin-Dong Kim | 2023-11-30 | Developing | |
| LitCovid-GlycoBiology | | Articles from GlycoBiology, received by the keyword "Covid-19" | 0 | | Jin-Dong Kim | 2023-11-29 | Testing | |
| LitCovid_Glycan-Motif-Structure | | PubDictionaries annotation for glycan-Motif terms. | 6.51 K | | ISSAKU YAMADA | 2023-11-29 | Beta | |
