UseCases_PubTatorCentral | | Predictions from PubTator Central (https://www.ncbi.nlm.nih.gov/research/pubtator/) for the seven datasets and for four entity types (disease,chemical,species,cellline) | 0 | | zebet | 2023-11-29 | Developing | |
CORD-19-sample-paragraphs | | | 28 | | Jin-Dong Kim | 2023-11-29 | Developing | |
GlycoGenes | | annotation for glyco-genes based on GGDB | 1.01 K | | Jin-Dong Kim | 2023-11-29 | Developing | |
CORD-19-sample-MONDO | | | 113 | | Jin-Dong Kim | 2023-11-29 | Developing | |
CORD-19-sample-IDO | | | 76 | | Jin-Dong Kim | 2023-11-29 | Developing | |
UseCases_ArguminSci_Discourse | | Predictions from ArguminSci(http://lelystad.informatik.uni-mannheim.de/) for the seven datasets and for discourse categories | 7.12 K | | zebet | 2023-11-29 | Developing | |
GlyCosmos6-UBERON | | | 689 K | | Jin-Dong Kim | 2023-12-15 | Developing | |
PubTator4TogoVar | | | 198 K | PubTator | Yasunori Yamamoto | 2024-01-10 | Developing | |
PA-LLM | | 🖐️ LLMs for biomedical text summarisation | 0 | | Nico Colic | 2024-01-19 | Developing | |
SPECIES800_autotagged | | This project comprises the SPECIES800 corpus documents automatically annotated by the Jensenlab tagger.
Annotated entity types are:
Genes/proteins from the mentioned organisms (and any human ones)
PubChem Compound identifiers
NCBI Taxonomy entries
Gene Ontology cellular component terms
BRENDA Tissue Ontology terms
Disease Ontology terms
Environment Ontology terms
The SPECIES 800 (S800) comprises 800 PubMed abstracts. In its original form species mentions were manually identified and mapped to the corresponding NCBI Taxonomy identifiers.
Described in:
The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text.
Pafilis E, Frankild SP, Fanini L, Faulwetter S, Pavloudi C, et al. (2013). PLoS ONE, 2013, 8(6): e65390. doi:10.1371/journal.pone.0065390.
The manually annotated corpus is also available as a PubAnnotation project (see here).
| 0 | Evangelos Pafilis, Sampo Pyysalo, Lars Juhl Jensen | evangelos | 2015-11-20 | Testing | |
bc2gn_test | | test | 0 | | | 2021-07-13 | Testing | |
CORD-19-Sentences | | | 13.4 M | | Jin-Dong Kim | 2023-11-24 | Testing | |
MyTest | | | 9.81 M | | Jin-Dong Kim | 2023-11-24 | Testing | |
MENA-example2 | | | 3 | | Jin-Dong Kim | 2023-11-24 | Testing | |
sonoma | | _ | 19.3 K | Standigm | | 2023-11-24 | Testing | |
speech-test | | | 6 | | Jin-Dong Kim | 2023-11-26 | Testing | |
AlvisNLP-Async-Test | | Test for the asynchronous AlvisNLP/ML annotator family. | 0 | Robert Bossy | rbossy | 2023-11-26 | Testing | |
CORD-19-SciBite-sentences | | | 11.2 K | | Jin-Dong Kim | 2023-11-26 | Testing | |
glycosmos-test-structure-v1 | | | 471 | | ISSAKU YAMADA | 2023-11-27 | Testing | |
UCDIT_TEST | | colitis link | 91.6 K | | alo33 | 2023-11-27 | Testing | |