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 M | | mboguslav | 2023-11-24 | Developing | |
LitCovid-PD-CHEBI | | | 1.43 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
PMID_GLOBAL | | Global sentencer tagging of public PMID abstracts.
Open and publicly available to the global community. | 2.24 M | | alo33 | 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 | |
LitCovid-PD-CLO | | | 3.73 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
LitCovid-sentences | | | 5.63 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
sentences | | Sentence segmentation annotation.
Automatic annotation by TextSentencer. | 6.96 M | DBCLS | 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 | |
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 | |
PA-LLM-test | | | 0 | | Nico Colic | 2024-01-19 | Testing | |
Kymeka_cho | | | 91 | | | 2024-01-18 | Testing | |
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. | 0 | Kyung-Min Chae | Kyung-Min Chae | 2024-01-17 | Testing | |
test-210614 | | | 17.8 K | | Jin-Dong Kim | 2024-01-05 | Testing | |
test_disfluency_annotation_auto_jp | | | 0 | | Jin-Dong Kim | 2023-12-28 | Testing | |
LitCovid-sample-UniProt | | | 1.25 K | | Jin-Dong Kim | 2023-11-30 | Testing | |
LitCoin-PubTator-for-Tuning-SeqVar | | | 127 | | shuo50 | 2023-11-29 | Testing | |
LitCoin-NCBITaxon-2 | | | 1.65 K | | atsuko | 2023-11-29 | Testing | |
GlycosmosP-GlycoEpitope | | | 24 | | Jin-Dong Kim | 2023-11-29 | Testing | |
silkworm | | | 9.87 K | | Masakazu SAGA | 2023-11-29 | Testing | |
LitCoin-SeqVar | | | 810 | | shuo50 | 2023-11-29 | Testing | |