> top > projects

Projects

NameTDescription# Ann.AuthorMaintainer Updated_atStatus

501-520 / 556 show all
test-integbio 0yucca2016-08-03
PMC-KEGG Documents from PMC including the word KEGG, with names of software tools and databases marked. 27yucca2023-11-28Developing
LitCoin-Disease-MeSH MeSH C and F03, plus false negatives that appear in two or more documents in LitCoin-entities3.56 Kyucca2023-11-29Testing
LitCoin-Chemical-MeSH-CHEBI ChemicalEntity: Annotated by PD-MeSH2022_CHEBI_tuned-B3.84 Kyucca2023-11-29Testing
TEST-ChemicalEntity ChemicalEntity : Annotated by PD-MeSH2022_CHEBI_tuned-B827yucca2023-11-29Beta
FA_Top100Plus-GeneProtein Top100＋本来Top100に入るべきだった７レビューの計、107レビュー中101レビュー。 5414, 6076, 6930, 8403, 9643, 18544は、0denotationでドキュメント自体登録していない。 attributesの詳細はconfig参照。 ドキュメントのソースDBが@AikoHIRAKIとなっているものはTypo修正がPubAnnotationの公式FirstAuthorsドキュメントに反映された段階で置き換えます。 10.4 Kyucca2023-11-29Uploading
FSU-PRGE A new broad-coverage corpus composed of 3,306 MEDLINE abstracts dealing with gene and protein mentions. The annotation process was semi-automatic. Publication: http://aclweb.org/anthology/W/W10/W10-1838.pdf59.5 KCALBC ProjectYue Wang2023-11-26Released
AIMed The AIMed corpus is one of the most widely used corpora for protein-protein interaction extraction. The protein annotations are either parts of the protein interaction annotations, or are uninvolved in any protein interaction annotation. Publication: http://www.cs.utexas.edu/~ml/papers/bionlp-aimed-04.pdf4.04 KThe University of Texas at AustinYue Wang2023-11-27Testing
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
OryzaGP A dataset for Named Entity Recognition for rice gene29.1 KHuy Do and Pierre LarmandeYue Wang2023-11-24Uploading
PennBioIE The PennBioIE corpus (0.9) covers two domains of biomedical knowledge. One is the inhibition of the cytochrome P450 family of enzymes (CYP450 or CYP for short) , and the other domain is the molecular genetics of dance (oncology or onco for short).23.8 KUPenn Biomedical Information Extraction ProjectYue Wang2023-11-26Released
SCAI-Test A small corpus for the evaluation of dictionaries containing chemical entities. Publication: http://www.scai.fraunhofer.de/fileadmin/images/bio/data_mining/paper/kolarik2008.pdf Original source: https://www.scai.fraunhofer.de/en/business-research-areas/bioinformatics/downloads/corpora-for-chemical-entity-recognition.html1.21 KCALBC ProjectYue Wang2023-11-28Released
CyanoBase Cyanobacteria are prokaryotic organisms that have served as important model organisms for studying oxygenic photosynthesis and have played a significant role in the Earthfs history as primary producers of atmospheric oxygen. Publication: http://www.aclweb.org/anthology/W12-24301.1 KKazusa DNA Research Institute and Database Center for Life Science (DBCLS)Yue Wang2023-11-26Released
funRiceGenes-all 1.51 KPubDictionariesYue Wang2023-11-29Developing
funRiceGenes-exact 841Yue Wang2023-11-28Developing
AnEM_full-texts 250 documents selected randomly from full-text papers Entity types: organism subdivision, anatomical system, organ, multi-tissue structure, tissue, cell, developing anatomical structure, cellular component, organism substance, immaterial anatomical entity and pathological formation Together with AnEM_abstracts, it is probably the largest manually annotated corpus on anatomical entities.687NaCTeMYue Wang2023-11-29Uploading
0_colil 781 KYue Wang2023-11-24
bionlp-st-pc-2013-training The training dataset from the pathway curation (PC) task in the BioNLP Shared Task 2013. The entity types defined in the PC task are simple chemical, gene or gene product, complex and cellular component.7.86 KNaCTeM and KISTIYue Wang2023-11-27Released
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
AnEM_abstracts 250 documents selected randomly from citation abstracts Entity types: organism subdivision, anatomical system, organ, multi-tissue structure, tissue, cell, developing anatomical structure, cellular component, organism substance, immaterial anatomical entity and pathological formation Together with AnEM_full-texts, it is probably the largest manually annotated corpus on anatomical entities.1.91 KNaCTeMYue Wang2023-11-29Released
NameT# Ann.AuthorMaintainer Updated_atStatus

501-520 / 556 show all
test-integbio 0yucca2016-08-03
PMC-KEGG 27yucca2023-11-28Developing
LitCoin-Disease-MeSH 3.56 Kyucca2023-11-29Testing
LitCoin-Chemical-MeSH-CHEBI 3.84 Kyucca2023-11-29Testing
TEST-ChemicalEntity 827yucca2023-11-29Beta
FA_Top100Plus-GeneProtein 10.4 Kyucca2023-11-29Uploading
FSU-PRGE 59.5 KCALBC ProjectYue Wang2023-11-26Released
AIMed 4.04 KThe University of Texas at AustinYue Wang2023-11-27Testing
bionlp-st-id-2011-training 5.61 KUniversity of Tokyo Tsujii Laboratory, NaCTeM and Biocomplexity Institute of Virginia TechYue Wang2023-11-28Released
OryzaGP 29.1 KHuy Do and Pierre LarmandeYue Wang2023-11-24Uploading
PennBioIE 23.8 KUPenn Biomedical Information Extraction ProjectYue Wang2023-11-26Released
SCAI-Test 1.21 KCALBC ProjectYue Wang2023-11-28Released
CyanoBase 1.1 KKazusa DNA Research Institute and Database Center for Life Science (DBCLS)Yue Wang2023-11-26Released
funRiceGenes-all 1.51 KPubDictionariesYue Wang2023-11-29Developing
funRiceGenes-exact 841Yue Wang2023-11-28Developing
AnEM_full-texts 687NaCTeMYue Wang2023-11-29Uploading
0_colil 781 KYue Wang2023-11-24
bionlp-st-pc-2013-training 7.86 KNaCTeM and KISTIYue Wang2023-11-27Released
bionlp-st-cg-2013-training 10.9 KNaCTeMYue Wang2023-11-28Released
AnEM_abstracts 1.91 KNaCTeMYue Wang2023-11-29Released