| PubMed-2000 | | abstracts published in 2000. | 0 | | Jin-Dong Kim | 2023-11-29 | Developing | |
| ICD10 | | Annotation for disease names as defined in ICD10 | 1.6 K | DBCLS | Jin-Dong Kim | 2023-11-29 | Developing | |
| GO-BP | | Annotation for biological processes as defined in the "Biological Process" subset of Gene Ontology | 35.4 K | DBCLS | Jin-Dong Kim | 2023-11-29 | Developing | |
| GlycoBiology-Motifs | | | 4.15 K | | Jin-Dong Kim | 2023-11-29 | | |
| pubmed-2016 | | abstracts published in 2016 | 0 | | Jin-Dong Kim | 2023-11-28 | | |
| GO-MF | | Annotation for molecular functions as defined in the "Molecular Function" subtree of Gene Ontology | 19.7 K | DBCLS | Jin-Dong Kim | 2023-12-04 | Testing | |
| bionlp-st-ge-2016-reference | | It is the benchmark reference data set of the BioNLP-ST 2016 GE task.
It includes Genia-style event annotations to 20 full paper articles which are about NFκB proteins.
The task is to develop an automatic annotation system which can produce annotation similar to the annotation in this data set as much as possible.
For evaluation of the performance of a participating system, the system needs to produce annotations to the documents in the benchmark test data set (bionlp-st-ge-2016-test).
GE 2016 benchmark data set is provided as multi-layer annotations which include:
bionlp-st-ge-2016-reference: benchmark reference data set (this project)
bionlp-st-ge-2016-test: benchmark test data set (annotations are blined)
bionlp-st-ge-2016-test-proteins: protein annotation to the benchmark test data set
Following is supporting resources:
bionlp-st-ge-2016-coref: coreference annotation
bionlp-st-ge-2016-uniprot: Protein annotation with UniProt IDs.
pmc-enju-pas: dependency parsing result produced by Enju
UBERON-AE: annotation for anatomical entities as defined in UBERON
ICD10: annotation for disease names as defined in ICD10
GO-BP: annotation for biological process names as defined in GO
GO-CC: annotation for cellular component names as defined in GO
A SPARQL-driven search interface is provided at http://bionlp.dbcls.jp/sparql. | 14.4 K | DBCLS | Jin-Dong Kim | 2023-11-29 | Released | |
| test_disfluency_annotation_auto_jp | | | 0 | | Jin-Dong Kim | 2023-12-28 | Testing | |
| DisGeNet-2017-sample | | | 2.93 K | | Jin-Dong Kim | 2023-11-29 | Testing | |
| Glycosmos6-MAT | | Automatic annotation by PD-MAT. | 263 K | | Jin-Dong Kim | 2023-11-29 | Developing | |
| GlycosmosP-GlycoEpitope | | | 24 | | Jin-Dong Kim | 2023-11-29 | Testing | |
| sentences | | Sentence segmentation annotation.
Automatic annotation by TextSentencer. | 6.96 M | DBCLS | Jin-Dong Kim | 2023-11-24 | Developing | |
| Test-Documents | | | 1 | | Jin-Dong Kim | 2023-11-24 | | |
| GlyCosmos600-GlycanStructure | | | 97 | | Jin-Dong Kim | 2023-11-29 | Testing | |
| GlyCosmosP-Glycan-Motif | | | 8 | | Jin-Dong Kim | 2023-11-24 | Developing | |
| GlyCosmos600-docs | | A 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. | 0 | | Jin-Dong Kim | 2023-11-29 | Released | |
| MENA-example2 | | | 3 | | Jin-Dong Kim | 2023-11-24 | Testing | |
| Glycosmos6-GlycoEpitope | | Automatic annotation by PD-GlycoEpitope. | 19.9 K | | Jin-Dong Kim | 2023-11-28 | Developing | |
| MyTest | | | 9.81 M | | Jin-Dong Kim | 2023-11-24 | Testing | |
| LitCovid-sentences | | | 5.63 M | | Jin-Dong Kim | 2023-11-24 | Developing | |
