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+

README.md

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+---
+tags:
+  - flair
+  - hunflair
+  - token-classification
+  - sequence-tagger-model
+language: en
+widget:
+  - text: It contains a functional GCGGCGGCG Egr-1-binding site
+---
+
+## HunFlair2 model for TFBS
+
+[HunFlair](https://github.com/flairNLP/flair/blob/master/resources/docs/HUNFLAIR2.md) (biomedical flair) for enhancer entity:
+
+- pre-trained language model: michiyasunaga/BioLinkBERT-base
+- fine-tuned on RegEl corpus for `Tfbs` entity type
+
+Predicts 1 tag:
+
+| **tag** | **meaning**                              |
+| ------- | ---------------------------------------- |
+| Tfbs    | DNA region bound by transcription factor |
+
+______________________________________________________________________
+
+## Info
+
+### Demo: How to use in Flair
+
+Requires:
+
+- **[Flair](https://github.com/flairNLP/flair/)>=0.14.0** (`pip install flair` or `pip install git+https://github.com/flairNLP/flair.git`)
+
+```python
+from flair.data import Sentence
+from flair.nn import Classifier
+from flair.tokenization import SciSpacyTokenizer
+
+text = "We found that Egr-1 specifically binds to the PTEN 5' untranslated region, which contains a functional GCGGCGGCG Egr-1-binding site."
+sentence = Sentence(text, use_tokenizer=SciSpacyTokenizer())
+
+tagger = Classifier.load("regel-corpus/hunflair2-regel-tfbs")
+tagger.predict(sentence)
+
+print('The following NER tags are found:')
+# iterate over entities and print
+for entity in sentence.get_spans('ner'):
+    print(entity)
+```

pytorch_model.bin

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