> top > projects

Projects

NameT Description# Ann.AuthorMaintainerUpdated_atStatus

301-320 / 557 show all
PMA_Manual Manually annotated examples of medical device PMA approval statements204Stefano Rensitherightstef2023-11-27Developing
med-device 434laurenc2023-11-27Developing
blah6 device Annotator374slee72682023-11-28Testing
bionlp-st-ge-2016-coref Coreference annotation to the benchmark data set (reference and test) of BioNLP-ST 2016 GE task. For detailed information, please refer to the benchmark reference data set (bionlp-st-ge-2016-reference) and benchmark test data set (bionlp-st-ge-2016-test).853DBCLSJin-Dong Kim2023-11-28Released
Bioinformatics_fulltext 0Sophie Nam2023-11-28Uploading
test2 12.3 Kykyao2023-11-29
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
tmVarCorpus Wei C-H, Harris BR, Kao H-Y, Lu Z (2013) tmVar: A text mining approach for extracting sequence variants in biomedical literature, Bioinformatics, 29(11) 1433-1439, doi:10.1093/bioinformatics/btt156.1.43 KChih-Hsuan Wei , Bethany R. Harris , Hung-Yu Kao and Zhiyong LuChih-Hsuan Wei2023-11-24Released
Genomics_Inform 0Sophie Nam2023-11-29
Nucleic_Acids 0Sophie Nam2023-11-29
Briefings 0Sophie Nam2023-11-29
CoMAGC In order to access the large amount of information in biomedical literature about genes implicated in various cancers both efficiently and accurately, the aid of text mining (TM) systems is invaluable. Current TM systems do target either gene-cancer relations or biological processes involving genes and cancers, but the former type produces information not comprehensive enough to explain how a gene affects a cancer, and the latter does not provide a concise summary of gene-cancer relations. In order to support the development of TM systems that are specifically targeting gene-cancer relations but are still able to capture complex information in biomedical sentences, we publish CoMAGC, a corpus with multi- faceted annotations of gene-cancer relations. In CoMAGC, a piece of annotation is composed of four semantically orthogonal concepts that together express 1) how a gene changes, 2) how a cancer changes and 3) the causality between the gene and the cancer. The multi-faceted annotations are shown to have high inter-annotator agreement. In addition, the annotations in CoMAGC allow us to infer the prospective roles of genes in cancers and to classify the genes into three classes according to the inferred roles. We encode the mapping between multi-faceted annotations and gene classes into 10 inference rules. The inference rules produce results with high accuracy as measured against human annotations. CoMAGC consists of 821 sentences on prostate, breast and ovarian cancers. Currently, the corpus deals with changes in gene expression levels among other types of gene changes.1.53 KLee et alHee-Jin Lee2023-11-24Released
GoldHamster 285 Kzebet2023-11-29Beta
0_colil 781 KYue Wang2023-11-24
glycosmos_glycans 0kiyoko2023-11-29
events-check-again 14.4 K2023-11-30Testing
test-2 0therightstef2023-11-29Testing
PMA_MER PMAs annotated using MERpy.58.9 KStefano Rensitherightstef2023-11-29Developing
uniprot-human Uniprot proteins for human21.8 KJin-Dong KimJin-Dong Kim2023-11-29Testing
guideline annotations 5 guideline annotations with custom vocab0Tiffany Leung2015-11-07Developing
NameT # Ann.AuthorMaintainerUpdated_atStatus

301-320 / 557 show all
PMA_Manual 204Stefano Rensitherightstef2023-11-27Developing
med-device 434laurenc2023-11-27Developing
blah6 374slee72682023-11-28Testing
bionlp-st-ge-2016-coref 853DBCLSJin-Dong Kim2023-11-28Released
Bioinformatics_fulltext 0Sophie Nam2023-11-28Uploading
test2 12.3 Kykyao2023-11-29
bionlp-st-2016-SeeDev-training 35EstelleChaix2023-11-28Released
tmVarCorpus 1.43 KChih-Hsuan Wei , Bethany R. Harris , Hung-Yu Kao and Zhiyong LuChih-Hsuan Wei2023-11-24Released
Genomics_Inform 0Sophie Nam2023-11-29
Nucleic_Acids 0Sophie Nam2023-11-29
Briefings 0Sophie Nam2023-11-29
CoMAGC 1.53 KLee et alHee-Jin Lee2023-11-24Released
GoldHamster 285 Kzebet2023-11-29Beta
0_colil 781 KYue Wang2023-11-24
glycosmos_glycans 0kiyoko2023-11-29
events-check-again 14.4 K2023-11-30Testing
test-2 0therightstef2023-11-29Testing
PMA_MER 58.9 KStefano Rensitherightstef2023-11-29Developing
uniprot-human 21.8 KJin-Dong KimJin-Dong Kim2023-11-29Testing
guideline annotations 0Tiffany Leung2015-11-07Developing