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NameTDescription# Ann.AuthorMaintainerUpdated_at Status

201-220 / 556 show all
ENG_RE_CONSENSUS 250dpavot2023-11-28
glycosmos-test-glycan-structure 448ISSAKU YAMADA2023-11-28Testing
GlyCosmos600-CLO 1.73 KJin-Dong Kim2023-11-28Testing
pubmed-2016 abstracts published in 20160Jin-Dong Kim2023-11-28
twitter-test 13Jin-Dong Kim2023-11-28Developing
LitCovid-sample-Pubtator 3.86 KJin-Dong Kim2023-11-28Uploading
KAIST_NLP_Annotation8 5.02 Kkaist_nlp2023-11-28Developing
bionlp-st-2016-SeeDev-training Entities and event annotations from the training set of the BioNLP-ST 2016 SeeDev task. SeeDev task focuses on seed storage and reserve accumulation on the model organism, Arabidopsis thaliana. The SeeDev task is based on the knowledge model Gene Regulation Network for Arabidopsis (GRNA) that meets the needs of text-mining (i.e. manual annotation of texts and automatic information extraction), experimental data indexing and retrieval and reuse in other plant systems. It is also expected to meet the requirements of the integration of the text knowledge with knowledge derived from experimental data in view of modeling in systems biology. GRNA model defines 16 different types of entities, and 22 types of event (in five sets of event types) that may be combined in complex events. For more information, please refer to the task website All annotations : Train set Development set Test set (without events) 35EstelleChaix2023-11-28Released
bionlp-st-cg-2013-training The training dataset from the cancer genetics task in the BioNLP Shared Task 2013. Composed of anatomical and molecular entities.10.9 KNaCTeMYue Wang2023-11-28Released
uniprot-mouse Protein annotation based on UniProt11.5 KJin-Dong Kim2023-11-28Developing
WikiPainGoldStandard Wiki-pain contains molecular interactions that are relevant to pain.878Daniel Jamiesonnikolamilosevic2023-11-28Developing
funRiceGenes-exact 841Yue Wang2023-11-28Developing
bionlp-ost-19-SeeDev-bin-test 2.32 Kldeleger2023-11-28Developing
bionlp-ost-19-BB-norm-test 2.05 Kldeleger2023-11-28Developing
Training_Data_Spanish_es_en 0wmtbio2023-11-28Developing
Fragaria_ananassa_genes 0hidekih152023-11-28
pubmed-sentences-benchmark A benchmark data for text segmentation into sentences. The source of annotation is the GENIA treebank v1.0. Following is the process taken. began with the GENIA treebank v1.0. sentence annotations were extracted and converted to PubAnnotation JSON. uploaded. 12 abstracts met alignment failure. among the 12 failure cases, 4 had a dot('.') character where there should be colon (':'). They were manually fixed then successfully uploaded: 7903907, 8053950, 8508358, 9415639. among the 12 failed abstracts, 8 were "250 word truncation" cases. They were manually fixed and successfully uploaded. During the fixing, manual annotations were added for the missing pieces of text. 30 abstracts had extra text in the end, indicating copyright statement, e.g., "Copyright 1998 Academic Press." They were annotated as a sentence in GTB. However, the text did not exist anymore in PubMed. Therefore, the extra texts were removed, together with the sentence annotation to them. 18.4 KGENIA projectJin-Dong Kim2023-11-28Released
Bioinformatics_fulltext 0Sophie Nam2023-11-28Uploading
LitCovid-PD-FMA-UBERON 1.3 MJin-Dong Kim2023-11-28Developing
bionlp-st-id-2011-training The training dataset from the infectious diseases (ID) task in the BioNLP Shared Task 2011. Entity types: - Genes and gene products: gene, RNA, and protein name mentions. - Two-component systems: mentions of the names of two-component regulatory systems, frequently embedding the names of the two Proteins forming the system.- Chemicals: mentions of chemical compounds such as "NaCL".- Organisms: mentions of organism names or organism specification through specific properties (e.g. "graRS mutant").- Regulons/Operons: mentions of names of specific regulons and operons.5.61 KUniversity of Tokyo Tsujii Laboratory, NaCTeM and Biocomplexity Institute of Virginia TechYue Wang2023-11-28Released
NameT# Ann.AuthorMaintainerUpdated_at Status

201-220 / 556 show all
ENG_RE_CONSENSUS 250dpavot2023-11-28
glycosmos-test-glycan-structure 448ISSAKU YAMADA2023-11-28Testing
GlyCosmos600-CLO 1.73 KJin-Dong Kim2023-11-28Testing
pubmed-2016 0Jin-Dong Kim2023-11-28
twitter-test 13Jin-Dong Kim2023-11-28Developing
LitCovid-sample-Pubtator 3.86 KJin-Dong Kim2023-11-28Uploading
KAIST_NLP_Annotation8 5.02 Kkaist_nlp2023-11-28Developing
bionlp-st-2016-SeeDev-training 35EstelleChaix2023-11-28Released
bionlp-st-cg-2013-training 10.9 KNaCTeMYue Wang2023-11-28Released
uniprot-mouse 11.5 KJin-Dong Kim2023-11-28Developing
WikiPainGoldStandard 878Daniel Jamiesonnikolamilosevic2023-11-28Developing
funRiceGenes-exact 841Yue Wang2023-11-28Developing
bionlp-ost-19-SeeDev-bin-test 2.32 Kldeleger2023-11-28Developing
bionlp-ost-19-BB-norm-test 2.05 Kldeleger2023-11-28Developing
Training_Data_Spanish_es_en 0wmtbio2023-11-28Developing
Fragaria_ananassa_genes 0hidekih152023-11-28
pubmed-sentences-benchmark 18.4 KGENIA projectJin-Dong Kim2023-11-28Released
Bioinformatics_fulltext 0Sophie Nam2023-11-28Uploading
LitCovid-PD-FMA-UBERON 1.3 MJin-Dong Kim2023-11-28Developing
bionlp-st-id-2011-training 5.61 KUniversity of Tokyo Tsujii Laboratory, NaCTeM and Biocomplexity Institute of Virginia TechYue Wang2023-11-28Released