| LitCovid-PD-FMA-UBERON | | | 1.3 M | 2023-11-28 | Developing | |
| 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 K | 2023-11-29 | Beta | |
| LitCovid-sample-HP | | | 0 | 2023-11-29 | Testing | |
| GlycoBiology-Motifs | | | 4.15 K | 2023-11-29 | | |
| CORD-19-PD-HP | | PubDictionaries annotation for HP terms - updated at 2020-04-30
Disease term annotation based on HP.
Version 2020-04-20.
The terms in HP are loaded in PubDictionaries, with which the annotations in this project are produced. The parameter configuration used for this project is here.
Note that it is an automatically generated dictionary-based annotation. It will be updated periodically, as the documents are increased, and the dictionary is improved. | 1.15 M | 2023-11-29 | Released | |
| ggdb-test | | | 2.4 K | 2023-11-29 | Testing | |
| EDAM-topics | | annotation for EDAM topics | 11.6 K | 2023-11-29 | 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 | 2023-11-29 | Released | |
| bionlp-st-ge-2016-reference-eval | | | 426 | 2023-11-29 | Testing | |
| Test-merged | | | 3.21 K | 2023-11-29 | | |
