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Projects

NameTDescription# Ann.AuthorMaintainerUpdated_at Status

221-240 / 556 show all
GlycoBiology-MAT 5.59 Kshuo502023-11-28Testing
GlycoBiology-GDGDB GDGDB-based annotation to GlycoBiology abstracts 2.46 KToshihide Shikanaishikanai2023-11-29Testing
sonoma2 sonoma29.09 KStandigmchanung2023-11-29Beta
spacy-test Random set of articles used for testing in the development of the RESTful spaCy parsing web service. Since development is now finished, they are released for the community to use.131 KNico ColicNico Colic2023-11-29Released
test_HZAU_BioNLP 274AikoHIRAKI2023-11-29Testing
testtesttest 5.2 KJin-Dong Kim2023-11-29Developing
traitCurationTest_ichihara testProject1508064ichihara_hisakoHisako Ichihara2023-11-29Testing
MeasurableQuantitativeAnnotation A collection and annotation the measurable quantity information from 3202 pubmed article, which can be used for the task of extracting measurable quantity information. Annotation category: entity, num, unit.2.84 KWenjieNie2023-11-29Testing
PT_NER_NEL Annotations in Portuguese COVID-19 related abstracts from MeSH terminology245LASIGE-DeSTpruas_182023-11-29Developing
bionlp-st-ge-2016-uniprot UniProt protein annotation to the benchmark data set of BioNLP-ST 2016 GE task: reference data set (bionlp-st-ge-2016-reference) and test data set (bionlp-st-ge-2016-test). The annotations are produced based on a dictionary which is semi-automatically compiled for the 34 full paper articles included in the benchmark data set (20 in the reference data set + 14 in the test data set). For detailed information about BioNLP-ST GE 2016 task data sets, please refer to the benchmark reference data set (bionlp-st-ge-2016-reference) and benchmark test data set (bionlp-st-ge-2016-test). 16.2 KDBCLSJin-Dong Kim2023-11-29Beta
bionlp-st-gro-2013-training The training data set of the BioNLP-ST 2013 GRO task, including 150 MEDLINE abstracts that are annotated with concepts and relations of the Gene Regulation Ontology (GRO; http://www.ebi.ac.uk/Rebholz-srv/GRO/GRO.html)8.02 KJung-jae KimJung-jae Kim2023-11-29Testing
blah6_medical_device BLAH6 hackathon project to annotate medical device indications in premarket approval statement summaries. The documents in this project serve as a corpus of premarket approval (PMA) statements that have undergone quality control. In particular, we have (1) removed non-ascii characters, (2) fixed some text segmentation errors, and (3) fixed some capitalization errors.0Stefano Rensitherightstef2023-11-29Beta
c_corpus Documents included in the c_corpus: https://github.com/SMAFIRA/c_corpus/blob/master/SMAFIRAc_0.4_Annotations.csv107 K2023-11-29Released
bionlp-st-gro-2013-development The development data set of the BioNLP-ST 2013 GRO task, including 50 MEDLINE abstracts that are annotated with concepts and relations of the Gene Regulation Ontology (GRO; http://www.ebi.ac.uk/Rebholz-srv/GRO/GRO.html)2.66 KJung-jae KimJung-jae Kim2023-11-29Testing
craft-ca-core-ex-dev Development data for CRAFT CA shared task, core concepts + EXTENSIONS. This project contains the development (training) annotations for the Concept Annotation task of the CRAFT Shared Task 2019. This particular set of concept annotations is the "core+extensions" set. See the task description for details, but this set contains annotations to concepts that appear in the original 10 Open Biomedical Ontologies used for annotation PLUS annotations to extension classes created using the core concepts.90.2 KUniversity of Colorado Anschutz Medical Campuscraft-st2023-11-29Released
LitCoin-Chemical-MeSH-CHEBI ChemicalEntity: Annotated by PD-MeSH2022_CHEBI_tuned-B3.84 Kyucca2023-11-29Testing
disease_ontology_term_microbe 5evangelos2023-11-29Developing
bionlp-st-bb3-2016-training Entity (bacteria, habitats and geographical places) annotation to the training dataset of the BioNLP-ST 2016 BB task. For more information, please refer to bionlp-st-bb3-2016-development and bionlp-st-bb3-2016-test. Bacteria Bacteria entities are annotated as contiguous spans of text that contains a full unambiguous prokaryote taxon name, the type label is Bacteria. The Bacteria type is a taxon, at any taxonomic level from phylum (Eubacteria) to strain. The category that the text entities have to be assigned to is the most specific and unique category of the NCBI taxonomy resource. In case a given strain, or a group of strains is not referenced by NCBI, it is assigned with the closest taxid in the taxonomy. Habitat Habitat entities are annotated as spans of text that contains a complete mention of a potential habitat for bacteria, the type label is Habitat. Habitat entities are assigned one or several concepts from the habitat subpart of the OntoBiotope ontology. The assigned concepts are as specific as possible. OntoBiotope defines most relevant microorganism habitats from all areas considered by microbial ecology (hosts, natural environment, anthropized environments, food, medical, etc.). Habitat entities are rarely referential entities, they are usually noun phrases including properties and modifiers. There are rare cases of habitats referred with adjectives or verbs. The spans are generally contiguous but some of them are discontinuous in order to cope with conjunctions. Geographical Geographical entities are geographical and organization places denoted by official names.1.28 KINRAYue Wang2023-11-29Released
excludesZoonoses 25AikoHIRAKI2023-11-29Developing
ichiharatest_150825 test0ichihara_hisakoHisako Ichihara2023-11-29Testing
NameT# Ann.AuthorMaintainerUpdated_at Status

221-240 / 556 show all
GlycoBiology-MAT 5.59 Kshuo502023-11-28Testing
GlycoBiology-GDGDB 2.46 KToshihide Shikanaishikanai2023-11-29Testing
sonoma2 9.09 KStandigmchanung2023-11-29Beta
spacy-test 131 KNico ColicNico Colic2023-11-29Released
test_HZAU_BioNLP 274AikoHIRAKI2023-11-29Testing
testtesttest 5.2 KJin-Dong Kim2023-11-29Developing
traitCurationTest_ichihara 4ichihara_hisakoHisako Ichihara2023-11-29Testing
MeasurableQuantitativeAnnotation 2.84 KWenjieNie2023-11-29Testing
PT_NER_NEL 245LASIGE-DeSTpruas_182023-11-29Developing
bionlp-st-ge-2016-uniprot 16.2 KDBCLSJin-Dong Kim2023-11-29Beta
bionlp-st-gro-2013-training 8.02 KJung-jae KimJung-jae Kim2023-11-29Testing
blah6_medical_device 0Stefano Rensitherightstef2023-11-29Beta
c_corpus 107 K2023-11-29Released
bionlp-st-gro-2013-development 2.66 KJung-jae KimJung-jae Kim2023-11-29Testing
craft-ca-core-ex-dev 90.2 KUniversity of Colorado Anschutz Medical Campuscraft-st2023-11-29Released
LitCoin-Chemical-MeSH-CHEBI 3.84 Kyucca2023-11-29Testing
disease_ontology_term_microbe 5evangelos2023-11-29Developing
bionlp-st-bb3-2016-training 1.28 KINRAYue Wang2023-11-29Released
excludesZoonoses 25AikoHIRAKI2023-11-29Developing
ichiharatest_150825 0ichihara_hisakoHisako Ichihara2023-11-29Testing