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User 'Jin-Dong Kim'


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 2022-02-21
LitCovid-sampleVarious annotations to a sample set of LitCovid, to demonstrate potential of harmonized various annotations.2021-01-14


NameTDescription# Ann.Updated atStatus
1-10 / 155 show all
BioASQ-samplecollection of PubMed articles which appear in the BioASQ sample data set.02015-10-13Testing
CHEMDNER-training-testThe training subset of the CHEMDNER corpus29.4 K2015-03-23Testing
NCBITAXONannotation for NCBI taxonomy491 K2022-10-20Developing
pubtator-sampleSample annotation of PubTator produced by Zhiyong Lu et al.282020-11-16Testing
GlycoBiology-FMAFMA ontology-based annotation to GlycoBiology abstracts96.3 K2020-02-05Testing
LitCovid-sample-Glycan3.21 K2021-01-19Testing
metamap-sampleSample annotation of MetaMep, produced by Aronson, et al. An overview of MetaMap: historical perspective and recent advances, JAMIA 201010.9 K2016-12-19Testing

Automatic annotators

1-10 / 35 show all
PubTator-ChemicalTo pull the pre-computed chemical annotation from PubTator.
PubTator-GeneTo pull the pre-computed gene annotation from PubTator.
PubTator-SpeciesTo pull the pre-computed Species annotation from PubTator.
TextSentencersentence segmentation
PubTator-DiseaseTo pull the pre-computed disease annotation from PubTator.
PubTator-MutationTo pull the pre-computed mutation annotation from PubTator.
discourse-simplifierA discourse analyzer developed by Univ. Manchester.
PD-NGLY1-deficiency-BA batch annotator for NGLY1 deficiency
PD-UBERON-AEIt annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. Threshold is set to 0.85.
PD-MONDOPubDictionaries annotation with the MONDO dictionary.


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TextAE-oldTextAE version 4, which was the latest stable version until Apr. 19, 2020.
TextAE-DevIt is a development version of TextAE. While this version has richer features, there is a chance of some bugs.
TextAETextAE version 5, which enables edition of attributes of denotations.