pruas commited on
Commit
58e9a88
1 Parent(s): 18c09cc

Update README.md

Browse files
Files changed (1) hide show
  1. README.md +17 -0
README.md CHANGED
@@ -2,10 +2,27 @@
2
  language:
3
  - en
4
  pipeline_tag: token-classification
 
5
  ---
6
 
7
  Named Entity Recognition (NER) model to recognize variant entities. Here variant entity is a DNA-level or protein-level mutation as defined by the [Human Genome Variation Society nomenclature](http://varnomen.hgvs.org/).
8
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
9
  [PubMedBERT](https://huggingface.co/microsoft/BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext) fine-tuned on the following datasets:
10
  - [tmVar](https://www.ncbi.nlm.nih.gov/research/bionlp/Data/): entity types "DNAMutation", "ProteinMutation", "SNP"
11
  - [PGxCorpus](https://www.nature.com/articles/s41597-019-0342-9): entity type "Limited_variation"
 
2
  language:
3
  - en
4
  pipeline_tag: token-classification
5
+ license: apache-2.0
6
  ---
7
 
8
  Named Entity Recognition (NER) model to recognize variant entities. Here variant entity is a DNA-level or protein-level mutation as defined by the [Human Genome Variation Society nomenclature](http://varnomen.hgvs.org/).
9
 
10
+ Please cite our work:
11
+
12
+ ```
13
+ @article{NILNKER2022,
14
+ title = {NILINKER: Attention-based approach to NIL Entity Linking},
15
+ journal = {Journal of Biomedical Informatics},
16
+ volume = {132},
17
+ pages = {104137},
18
+ year = {2022},
19
+ issn = {1532-0464},
20
+ doi = {https://doi.org/10.1016/j.jbi.2022.104137},
21
+ url = {https://www.sciencedirect.com/science/article/pii/S1532046422001526},
22
+ author = {Pedro Ruas and Francisco M. Couto},
23
+ }
24
+ ```
25
+
26
  [PubMedBERT](https://huggingface.co/microsoft/BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext) fine-tuned on the following datasets:
27
  - [tmVar](https://www.ncbi.nlm.nih.gov/research/bionlp/Data/): entity types "DNAMutation", "ProteinMutation", "SNP"
28
  - [PGxCorpus](https://www.nature.com/articles/s41597-019-0342-9): entity type "Limited_variation"