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Jin-Dong Kim
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Collections
NameDescriptionUpdated at
11-13 / 13 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
Lectin-Jamboree2024-12-19
GlyCosmos15Collection of annotations to the abstracts from the following journals: Analytical_Chemistry Biochim_Biophys_Acta Carbohydrate_Research Cell Glycobiology Glycoconjugate_Journal J_Am_Chem_Soc Journal_of_Biological_Chemistry Journal_of_Proteome_Research Journal_of_Proteomics Molecular_and_Cellular_Proteomics Nature_Biotechnology Nature_Communications Nature_Methods Scientific_Reports 2024-12-19
Projects
NameTDescription# Ann.Updated atStatus
41-50 / 175 show all
LitCovid-docs-s02023-11-29Released
Grays_part2_test8.57 K2023-11-29Testing
Grays_part1_test02023-11-29Testing
LitCovid-PubTator-s1962023-11-29
LitCovid-manual5402023-11-30Developing
glycogenes2.75 K2023-11-30Testing
LitCovid-PD-MONDO-v1PubDictionaries annotation for disease terms - updated at 2020-04-20 It is based on MONDO Version 2020-04-20. The terms in MONDO are loaded in PubDictionaries, with which the annotations in this project are produced. The parameter configuration used for this project is here. Note that it is an automatically generated dictionary-based annotation. It will be updated periodically, as the documents are increased, and the dictionary is improved.13.4 K2023-11-29Released
LitCoin-PubTator-for-TuningA set of randomly selected PubMed articles with PubTator annotation. The labels of PubTator annotations are converted to corresponding labels for LitCoin as follows: 'Gene' -> 'GeneOrGeneProduct', 'Disease' -> 'DiseaseOrPhenotypicFeature', 'Chemical' -> 'ChemicalEntity' 'Species' -> 'OrganismTaxon' 'Mutation' -> 'SequenceVariant' 'CellLine' -> 'CellLine'14.2 K2023-11-29
CORD-19-sample-HP392023-11-27Developing
LitCovid-sample-HP02023-11-29Testing
Automatic annotators
NameDescription
1-10 / 40 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.
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.
PD-FMA-PAEPhysical Anatomical Entities from FMA
Editors
NameDescription
1-1 / 1
TextAEThe official stable version of TextAE.