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Jin-Dong Kim
User info
Collections
Name DescriptionUpdated at
11-12 / 12 show all
LitCovid-v1This collection includes the result from the Covid-19 Virtual Hackathon. LitCovid is a comprehensive literature resource on the subject of Covid-19 collected by NCBI: https://www.ncbi.nlm.nih.gov/research/coronavirus/ Since the literature dataset was released, several groups are producing annotations to the dataset. To facilitate a venue for aggregating the valuable resources which are highly relevant to each other, and should be much more useful when they can be accessed together, this PubAnnotation collection is set up. It is a part of the Covid19-PubAnnotation project. In this collection, the LitCovid-docs project contains all the documents contained in the LitCovid literature collection, and the other projects are annotation datasets contributed by various groups. It is an open collection, which means anyone who wants to contribute can do so, in the following way: take the documents in the, LitCovid-docs project produce annotation to the texts based on your resource, and contribute the annotation back to this collection: create your own project at PubAnnotaiton, upload your annotation to the project (HowTo), and add the project to this collection. All the contributed annotations will become publicly available. Please note that, during uploading your annotation data, you do not need to be worried about slight changes in the text: PubAnnotation will automatically catch them and adjust the positions appropriately. Should you have any question, please feel free to mail to admin@pubannotation.org. 2020-11-20
PreeclampsiaPreeclampsia-related annotations for text mining2019-03-10
Projects
NameT Description# Ann.Updated atStatus
121-130 / 161 show all
GlyCosmos6-Glycan-Motif-StructureAutomatic annotation by Covid-19_Glycan-Motif.107 K2024-07-25Developing
NCBITAXONannotation for NCBI taxonomy. Automatic annotation by PD-NCBITaxon.1.1 M2024-09-18Developing
GlyCosmos15-docsAnalytical_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_Reports02024-09-19Released
Glycosmos15-GlycoEpitope27.8 K2024-09-18Developing
Anatomy-UBERONAnatomical structures based on UBERON.2.12 M2024-09-19Developing
Anatomy-MATAnatomical structures based on Minimal Anatomical Terminology (MAT).778 K2024-09-19Developing
mondo_diseaseannotation for diseases and disorders as defined in MONDO. Automatic annotation by PD-MONDO.1.16 M2024-09-18Developing
GlyCosmos15-Glycan21.4 K2024-09-19Developing
LitCovid-sample-UniProt1.25 K2023-11-30Testing
pubtator-sampleSample annotation of PubTator produced by Zhiyong Lu et al.282023-11-27Testing
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
Name Description
1-1 / 1
TextAEThe official stable version of TextAE.