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NameTDescription# Ann.AuthorMaintainerUpdated_atStatus

61-80 / 143 show all
CORD-19-sample-sentences 161Jin-Dong Kim2020-04-08Developing
CORD-19-sample-UBERON 54Jin-Dong Kim2020-04-08Developing
CORD-PICO Automatic annotation of the CORD-19 dataset with PICO categories. The corpus was automatically labeled with an LSTM-CRF model trained on human-annotated PubMed abstracts from https://github.com/bepnye/EBM-NLP. Currently, titles and abstracts only are annotated using Population, Intervention and Outcome labels, as well as more fine-grained labels such as Age, Drug, Mortality and others.69.6 KSimon Susterssuster2020-04-10Developing
CORD-19-sample-IDO 76Jin-Dong Kim2020-04-13Developing
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 Mmboguslav2020-04-16Developing
CORD-19-sample-MONDO 113Jin-Dong Kim2020-04-18Developing
CORD-19-sample-HP 39Jin-Dong Kim2020-04-18Developing
CORD-19-sample-CHEBI 16Jin-Dong Kim2020-04-19Developing
CORD-19-sample-FMA-UBERON 61Jin-Dong Kim2020-04-19Developing
LitCovid-TimeML 426 KJin-Dong Kim2020-04-28Developing
Goldhamster2_Cellosaurus 27.5 Kzebet2020-08-12Developing
tees-test Random PMC document used for testing during the development of a RESTful TEES parsing web service.467Nico ColicNico Colic2020-09-09Developing
LappsTest Project to test posting annotations directly from the Language Applications Grid2.67 KKeith Sudermanksuderman2020-09-18Developing
pmc-enju-pas Predicate-argument structure annotation produced by Enju. This data set is initially produced as a supporting resource for BioNLP-ST 2016 GE task. As so, it currently includes the 34 full paper articles that are in the benchmark data sets of GE 2016 task, reference data set (bionlp-st-ge-2016-reference) and test data set (bionlp-st-ge-2016-test), but will be extended to include more papers from the PubMed Central Open Access subset (PMCOA). 205 KDBCLSJin-Dong Kim2020-10-02Developing
UBERON-AE Annotation for anatomical entities based on the "Anatomical Entity" subtree of UBERON ontology. Annotations are automatically produced using PubDictionaries with threshold: 0.85.865 KDBCLSJin-Dong Kim2020-10-02Developing
ICD10 Annotation for disease names as defined in ICD101.6 KDBCLSJin-Dong Kim2020-10-02Developing
Biotea NCBO annotation on full text for PMC articles. Currently including only a small set of 2811 articles corresponding to those supporting curated diesease-protein annotation from UniProt and with machine-processable full text.894 KL. Garcia2020-10-02Developing
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)1.59 MFabio RinaldiNico Colic2020-10-14Developing
LitCovid-PD-FMA-UBERON 1.37 MJin-Dong Kim2020-11-26Developing
LitCovid-PD-CLO 3.91 MJin-Dong Kim2020-11-30Developing
NameT# Ann.AuthorMaintainerUpdated_atStatus

61-80 / 143 show all
CORD-19-sample-sentences 161Jin-Dong Kim2020-04-08Developing
CORD-19-sample-UBERON 54Jin-Dong Kim2020-04-08Developing
CORD-PICO 69.6 KSimon Susterssuster2020-04-10Developing
CORD-19-sample-IDO 76Jin-Dong Kim2020-04-13Developing
Epistemic_Statements 1.42 Mmboguslav2020-04-16Developing
CORD-19-sample-MONDO 113Jin-Dong Kim2020-04-18Developing
CORD-19-sample-HP 39Jin-Dong Kim2020-04-18Developing
CORD-19-sample-CHEBI 16Jin-Dong Kim2020-04-19Developing
CORD-19-sample-FMA-UBERON 61Jin-Dong Kim2020-04-19Developing
LitCovid-TimeML 426 KJin-Dong Kim2020-04-28Developing
Goldhamster2_Cellosaurus 27.5 Kzebet2020-08-12Developing
tees-test 467Nico ColicNico Colic2020-09-09Developing
LappsTest 2.67 KKeith Sudermanksuderman2020-09-18Developing
pmc-enju-pas 205 KDBCLSJin-Dong Kim2020-10-02Developing
UBERON-AE 865 KDBCLSJin-Dong Kim2020-10-02Developing
ICD10 1.6 KDBCLSJin-Dong Kim2020-10-02Developing
Biotea 894 KL. Garcia2020-10-02Developing
LitCovid-PMC-OGER-BB 1.59 MFabio RinaldiNico Colic2020-10-14Developing
LitCovid-PD-FMA-UBERON 1.37 MJin-Dong Kim2020-11-26Developing
LitCovid-PD-CLO 3.91 MJin-Dong Kim2020-11-30Developing