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Jin-Dong Kim
User info
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
151-159 / 159 show all
pubtator-sampleSample annotation of PubTator produced by Zhiyong Lu et al.282023-11-27Testing
semrep-sampleSample annotation of SemRep, produced by Rindflesch, et al. Rindflesch, T.C. and Fiszman, M. (2003). The interaction of domain knowledge and linguistic structure in natural language processing: interpreting hypernymic propositions in biomedical text. Journal of Biomedical Informatics, 36(6):462-477.11.1 K2023-11-29Testing
sentencesSentence segmentation annotation. Automatic annotation by TextSentencer.6.96 M2023-11-24Developing
LitCovid-sentences-v1Sentence segmentation of all the texts in the LitCovid literature. The segmentation is automatically obtained using the TextSentencer annotation service developed and maintained by DBCLS.16.5 K2023-11-27Released
LitCovid-PD-GO-BPTerms for biological prosesses, as defined in GO374 K2023-11-29Developing
GlycoConjugate-collectionThe PubMed entries (titles and abstracts) from the journal of GlycoConjugate02023-11-28Developing
CHEMDNER-training-testThe training subset of the CHEMDNER corpus29.4 K2023-11-27Testing
LitCoin-GeneOrGeneProduct-v2threshold = 0.938.98 K2023-11-29
uniprot-humanUniprot proteins for human21.8 K2023-11-29Testing
Automatic annotators
NameDescription
1-10 / 38 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.
Editors
NameDescription
1-2 / 2
TextAE-oldTextAE version 4, which was the latest stable version until Apr. 19, 2020.
TextAETextAE version 5, which enables edition of attributes of denotations.