PubAnnotation

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Jin-Dong Kim

User info

Collections

Name		Description	Updated at

« 1 2 11-12 / 12 show all
Glycosmos6		This 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
GlyCosmos15		Collection 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	2024-09-19

Projects

Name	T	Description	# Ann.	Updated at	Status

« 1 2 ... 6 7 8 9 10 11 12 13 14 ... 16 17 » 91-100 / 161 show all
LitCovid-PD-GlycoEpitope			999	2023-11-29	Developing
LitCovid-PD-GO-BP		Terms for biological prosesses, as defined in GO	374 K	2023-11-29	Developing
LitCovid-PD-HP			922 K	2023-11-28	Beta
LitCovid-PD-HP-v1		PubDictionaries annotation for human phenotype terms - updated at 2020-04-20 Disease term annotation based on HP. Version 2020-04-20. The terms in HP 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.	3.03 K	2023-11-29	Released
LitCovid-PD-MONDO			2.26 M	2023-11-24
LitCovid-PD-MONDO-v1		PubDictionaries 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 K	2023-11-29	Released
LitCovid-PD-UBERON			540 K	2023-11-29
LitCovid-PubTator			5.88 M	2023-11-24	Beta
LitCovid-PubTator-s			196	2023-11-29
LitCovid-sample-CHEBI			1.44 K	2023-11-29	Testing

Automatic annotators

Name	Description

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PubTator-Chemical	To pull the pre-computed chemical annotation from PubTator.
PubTator-Gene	To pull the pre-computed gene annotation from PubTator.
PubTator-Species	To pull the pre-computed Species annotation from PubTator.
PubTator-Disease	To pull the pre-computed disease annotation from PubTator.
PubTator-Mutation	To pull the pre-computed mutation annotation from PubTator.
discourse-simplifier	A discourse analyzer developed by Univ. Manchester.
PD-NGLY1-deficiency-B	A batch annotator for NGLY1 deficiency
PD-UBERON-AE	It annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. Threshold is set to 0.85.
PD-MONDO	PubDictionaries annotation with the MONDO dictionary.
PD-FMA-PAE	Physical Anatomical Entities from FMA

Editors

Name	Description

1-1 / 1
TextAE	The official stable version of TextAE.