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Annotations made to the titles and abstracts of the journal 'GlycoBiology'
Preeclampsia-related annotations for text mining
The 2016 edition of the Genia event extraction (GE) task organized within BioNLP-ST 2016
A random collection of 600 PubMed abstracts from 6 glycobiology-related journals: Glycobiology, Glycoconjugate journal, The Journal of biological chemistry, Journal of proteome research, Journal of proteomics, and Carbohydrate research. The whole PMIDs were collected on June 11, 2019. From each journal, 100 PMIDs were randomly sampled.
This 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 firstname.lastname@example.org.
Various annotations to a sample set of LitCovid, to demonstrate potential of harmonized various annotations.
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Annotating PubMed abstracts for predicate-argument structure (PAS). Enju 2.4.2 is used to automatically compute PAS.
Sentence segmentation annotation. Automatic annotation by TextSentencer.
The Custom license subset of the CORD-19 dataset. The documents in this project will be updated as the CORD-19 dataset grows. See the COVID DATASET LICENSE AGREEMENT.
Disease-Gene association annotation.
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To pull the pre-computed chemical annotation from PubTator.
To pull the pre-computed gene annotation from PubTator.
To pull the pre-computed Species annotation from PubTator.
To pull the pre-computed disease annotation from PubTator.
To pull the pre-computed mutation annotation from PubTator.
A discourse analyzer developed by Univ. Manchester.
A batch annotator for NGLY1 deficiency
It annotates for anatomical entities, based on the UBERON-AE dictionary on PubDictionaries. Threshold is set to 0.85.
PubDictionaries annotation with the MONDO dictionary.
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TextAE version 4, which was the latest stable version until Apr. 19, 2020.
TextAE version 5, which enables edition of attributes of denotations.
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