BioBERT for K. marxianus Survival Gene NER
Fine-tuned BioBERT-Large v1.1 for Named Entity Recognition in Kluyveromyces marxianus literature.
Model Description
Identifies biological entities in yeast genomics:
- GENE: Gene names (PMA1, HOG1, MSN2)
- PROTEIN: Protein types (ATPase, kinase)
- STRESS: Environmental stress (acid, heat, osmotic)
- PATHWAY: Metabolic/signaling pathways
- PHENOTYPE: Phenotypic traits
- METABOLITE: Biochemical compounds
Usage
from transformers import AutoTokenizer, AutoModelForTokenClassification
tokenizer = AutoTokenizer.from_pretrained("Milad96/km-biobert-survival-genes")
model = AutoModelForTokenClassification.from_pretrained("Milad96/km-biobert-survival-genes")
text = "The PMA1 gene encodes H+-ATPase for acid stress tolerance"
inputs = tokenizer(text, return_tensors="pt")
outputs = model(**inputs)
PhD Research
Author: Milad Shaghaghi Ranjbar (میلاد شقاقی رنجبر)
Institution: Islamic Azad University, Kish International Campus
License
MIT License
- Downloads last month
- 3
Inference Providers NEW
This model isn't deployed by any Inference Provider. 🙋 Ask for provider support