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Name SDescriptionMaintainerUpdated_at

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190926nakazato2019-09-26
AGACThis is the collection for AGAC track data, a subtask in BioNLP OST 2019, Hong Kong. xiajingbo2019-03-13
AnEMthe largest manually annotated corpus on anatomical entitiesYue Wang2019-04-03
Annotation of Human Phenotype-Gene Relations - Identification of Negative, False, and Unknown RelationsAccessible negative results are relevant for researchers and clinicians not only to limit their search space but also to prevent the costly re-exploration of the hypothesis. However, most biomedical relation extraction data sets do not seek to distinguish between a false and a negative relation. A false relation should express a context where the entities are not related. In contrast, a negative relation should express a context where there is an affirmation of no association between the two entities. Furthermore, when we are dealing with data sets created using distant supervision techniques, we also have some false negative relations that constitute undocumented/unknown relations. Unknown relations are good examples to further exploration by researchers and clinicians. We propose to improve the distinction between these two concepts, by revising the false relations of the PGR corpus with regular expressions.dpavot2020-02-21
bionlp-ost-19-BB-kbBB-kb subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-kb is an entity normalization and relation extraction task. Homepage of Bacteria Biotope: https://sites.google.com/view/bb-2019/homeldeleger2020-02-07
bionlp-ost-19-BB-kb-nerBB-kb+ner subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-kb+ner is an entity recognition, normalization and relation extraction task. Homepage of Bacteria Biotope: https://sites.google.com/view/bb-2019/homeldeleger2020-02-07
bionlp-ost-19-BB-normBB-norm subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-norm is an entity normalization task.ldeleger2020-02-07
bionlp-ost-19-BB-norm-nerBB-norm+ner subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-norm+ner is an entity recognition and normalization task.ldeleger2020-02-07
bionlp-ost-19-BB-relBB-rel subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-rel is a relation extraction task. Homepage of Bacteria Biotope: https://sites.google.com/view/bb-2019/home ldeleger2020-02-07
bionlp-ost-19-BB-rel-nerBB-rel+ner subtask of the Bacteria Biotope task proposed at BioNLP-OST 2019. BB-rel+ner is an entity recognition and relation extraction task. Homepage of Bacteria Biotope: https://sites.google.com/view/bb-2019/homeldeleger2020-02-07
bionlp-ost-19-SeeDev-binarySeeDev-binary subtask of the SeeDev task proposed at BioNLP-OST 2019. SeeDev-binary is a binary relation extraction task. Homepage of SeeDev: https://sites.google.com/view/seedev2019/homeldeleger2020-02-07
bionlp-st-ge-2016The 2016 edition of the Genia event extraction (GE) task organized within BioNLP-ST 2016Jin-Dong Kim2019-03-11
CORD-19CORD-19 (COVID-19 Open Research Dataset) is a free, open resource for the global research community provided by the Allen Institute for AI: https://pages.semanticscholar.org/coronavirus-research. As of 2020-03-20, it contains over 29,000 full text articles. This CORD-19 collection at PubAnnotation is prepared for the purpose of collecting annotations to the texts, so that they can be easily accessed and utilized. If you want to contribute with your annotation, take the documents in the CORD-19_All_docs project, produce your annotation to the texts using your annotation system, and contribute the annotation back to PubAnnotation (HowTo). 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. Once you have uploaded your annotation, please notify it to admin@pubannotation.org admin@pubannotation.org, so that it can be included in this collection, which will make your annotation much easily findable. Note that as the CORD-19 dataset grows, the documents in this collection also will be updated. IMPORTANT: CORD-19 License agreement requires that the dataset must be used for text and data mining only.Jin-Dong Kim2020-03-23
DisGeNET5Associations obtained by text mining MEDLINE abstracts using the BeFree systemYue Wang2019-03-11
Glycan AbbreviationGlycan-Abbreviation in GlycoNAVIISSAKU YAMADA2019-07-17
GlycoBiologyAnnotations made to the titles and abstracts of the journal 'GlycoBiology'Jin-Dong Kim2019-03-10
GlyCosmos600A 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.Jin-Dong Kim2019-06-11
Graysokubo2019-03-11
LitCovidThanks to NCBI, a comprehensive literature resource on the subject of Covid-19 is being collected: https://www.ncbi.nlm.nih.gov/research/coronavirus/ This collection is to collect annotations to the documents of the dataset. If you want to contribute, take the documents in the LitCovid-docs project produce annotation to the texts based on your resource, and contribute the annotation back to PubAnnotation (HowTo). 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. Once you have uploaded your annotation, please notify it to admin@pubannotation.org admin@pubannotation.org, so that it can be included in this collection, which will make your annotation much easily findable. Jin-Dong Kim2020-03-18
med-device-indicationsPMA approval statements describing indications of class III devicestherightstef2020-02-05