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NameTDescription # Ann.AuthorMaintainerUpdated_atStatus

1-20 / 238 show all
LitCovid-OGER-BB Using OGER (www.ontogene.com) and Biobert to obtain annotations for 10 different vocabularies.308 KFabio RinaldiNico Colic2023-11-28Released
LitCovid-OGER Using OGER (http://www.ontogene.org/resources/oger) to detect entities from 10 different vocabularies9.31 KFabio RinaldiNico Colic2023-11-29Released
OryzaGP_2021 Updating OryzaGP1.08 MPierre Larmandelarmande2023-11-28Developing
LitCoin-GeneOrGeneProduct-v2 threshold = 0.938.98 KJin-Dong Kim2023-11-29
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). 0Evangelos Pafilis, Sampo Pyysalo, Lars Juhl Jensenevangelos2015-11-20Testing
KYMEKA20240117Test This is a project to express the linking of terms and ontologies (DOID, FMA, Radlex) used in the dataset 'Annotationdata_type-2' used in BLAH8_Radiological Causal Annotation.0Kyung-Min ChaeKyung-Min Chae2024-01-17Testing
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.266AikoHIRAKI2023-11-27Released
Zoonoses This is a main data sets of Zoonoses project used by PanZoora.10.3 KAikoHIRAKI2023-11-26Developing
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 Mnestoralvaro2023-11-24Beta
GlycoConjugate-collection The PubMed entries (titles and abstracts) from the journal of GlycoConjugate0Jin-Dong Kim2023-11-28Developing
Epistemic_Statements The goal of this work is to identify epistemic statements in the scientific literature. An epistemic statement is a statement of unknowns, hypotheses, speculations, uncertainties, including statements of claims, hypotheses, questions, explanations, future opportunities, surprises, issues, or concerns within a sentence. The unit of an epistemic statement is a sentence automatically parsed. The classification is binary - epistemic statement or not. We will label epistemic statements only and one can assume that if a statement is not labeled, then it is not an epistemic statement. The classifier is a CRF, trained on gold standard annotations of epistemic statements that are currently ongoing. We report an F-measure of 0.91 after 5-fold cross validation on a test set with 914 statements and an F-measure of 0.9 on a held out document with 130 statements. This project is still under development and is submitted to be used for the CovidLit project and associated Hackathon. Please contact Mayla if you have any questions.1.42 Mmboguslav2023-11-24Developing
DisGeNET5_variant_disease The file contains variant-disease associations obtained by text mining MEDLINE abstracts using the BeFree system, including the variant and disease off sets. 144 KIBI GroupYue Wang2023-11-24Released
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 MIBI GroupYue Wang2023-11-24Released
biosemtest test submitting Peregrine annotations35.6 KMark Thompsonmarkthompson2023-11-29Testing
silkworm_test test project457yaguchi2023-11-29Testing
AlvisNLP-Async-Test Test for the asynchronous AlvisNLP/ML annotator family.0Robert Bossyrbossy2023-11-26Testing
oger-json-test Test corpus for testing OGER web service97.6 KNico Colic2023-11-29Testing
Test_economics test1YongHwanKimkimyonghwan2023-11-29Testing
causal0001 test0ju-hyuck hanJu-Hyuck Han2024-01-17
bc2gn_test test02021-07-13Testing
NameT# Ann.AuthorMaintainerUpdated_atStatus

1-20 / 238 show all
LitCovid-OGER-BB 308 KFabio RinaldiNico Colic2023-11-28Released
LitCovid-OGER 9.31 KFabio RinaldiNico Colic2023-11-29Released
OryzaGP_2021 1.08 MPierre Larmandelarmande2023-11-28Developing
LitCoin-GeneOrGeneProduct-v2 8.98 KJin-Dong Kim2023-11-29
SPECIES800_autotagged 0Evangelos Pafilis, Sampo Pyysalo, Lars Juhl Jensenevangelos2015-11-20Testing
KYMEKA20240117Test 0Kyung-Min ChaeKyung-Min Chae2024-01-17Testing
Zoonoses_partialAnnotation 266AikoHIRAKI2023-11-27Released
Zoonoses 10.3 KAikoHIRAKI2023-11-26Developing
NEUROSES 2.14 Mnestoralvaro2023-11-24Beta
GlycoConjugate-collection 0Jin-Dong Kim2023-11-28Developing
Epistemic_Statements 1.42 Mmboguslav2023-11-24Developing
DisGeNET5_variant_disease 144 KIBI GroupYue Wang2023-11-24Released
DisGeNET5_gene_disease 2.04 MIBI GroupYue Wang2023-11-24Released
biosemtest 35.6 KMark Thompsonmarkthompson2023-11-29Testing
silkworm_test 457yaguchi2023-11-29Testing
AlvisNLP-Async-Test 0Robert Bossyrbossy2023-11-26Testing
oger-json-test 97.6 KNico Colic2023-11-29Testing
Test_economics 1YongHwanKimkimyonghwan2023-11-29Testing
causal0001 0ju-hyuck hanJu-Hyuck Han2024-01-17
bc2gn_test 02021-07-13Testing