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Jin-Dong Kim
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Collections
NameDescription Updated at
11-12 / 12 show all
Glycosmos6This collection contains annotation projects which target all the PubMed abstracts (at the time of January 14, 2022) from the 6 glycobiology-related journals: Glycobiology Glycoconjugate journal The Journal of biological chemistry Journal of proteome research Journal of proteomics Carbohydrate research 2023-11-16
LitCovid-sampleVarious annotations to a sample set of LitCovid, to demonstrate potential of harmonized various annotations.2021-01-14
Projects
NameTDescription # Ann.Updated atStatus
101-110 / 161 show all
pubmed-enju-pasAnnotating PubMed abstracts for predicate-argument structure (PAS). Enju 2.4.2 is used to automatically compute PAS.19.1 M2023-11-24Developing
GO-BPAnnotation for biological processes as defined in the "Biological Process" subset of Gene Ontology35.4 K2023-11-29Developing
GO-CCAnnotation for cellular components as defined in the "Cellular Component" subtree of Gene Ontology17.6 K2023-11-30Developing
ICD10Annotation for disease names as defined in ICD101.6 K2023-11-29Developing
mondo_diseaseannotation for diseases and disorders as defined in MONDO. Automatic annotation by PD-MONDO.1.16 M2024-09-18Developing
EDAM-DFOannotation for EDAM terms for data, formats, and operations12.5 K2023-11-29Testing
EDAM-topicsannotation for EDAM topics11.6 K2023-11-29Testing
GlycoGenesannotation for glyco-genes based on GGDB1.01 K2023-11-29Developing
GO-MFAnnotation for molecular functions as defined in the "Molecular Function" subtree of Gene Ontology19.7 K2023-12-04Testing
NCBITAXONannotation for NCBI taxonomy. Automatic annotation by PD-NCBITaxon.1.1 M2024-09-18Developing
Automatic annotators
Name Description
1-10 / 40 show all
TextSentencersentence segmentation
PubTator-SpeciesTo pull the pre-computed Species annotation from PubTator.
PubTator-MutationTo pull the pre-computed mutation annotation from PubTator.
PubTator-GeneTo pull the pre-computed gene annotation from PubTator.
PubTator-DiseaseTo pull the pre-computed disease annotation from PubTator.
PubTator-ChemicalTo pull the pre-computed chemical annotation from PubTator.
PubTatorPubTator annotation provided by NCBI
PD-UBERON-AE-BIt annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. It used the default threshold, 0.85. It uses the batch mode annotation, and may be used for annotation to a large amount of documents.
PD-UBERON-AE-2023It annotates for anatomical entities, based on the UBERON-AE-2023 dictionary on PubDictionaries. Threshold is set to 0.85.
PD-UBERON-AEIt annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. Threshold is set to 0.85.
Editors
NameDescription
1-1 / 1
TextAEThe official stable version of TextAE.