A cost-sensitive BERT that handles the class imbalance for the task of biomedical NER.
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Updated
Apr 11, 2024 - Python
A cost-sensitive BERT that handles the class imbalance for the task of biomedical NER.
A comparative study of SVM, Random Forest, and BioBERT models for enhancing medical meta-analysis through accurate literature classification.
Farida Hanna Campbell 2023
Fine-tuning pre-trained BERT architectures from Hugging face
The traditional machine learning models give a lot of pain when we do not have sufficient labeled data for the specific task or domain we care about to train a reliable model. Transfer learning allows us to deal with these scenarios by leveraging the already existing labeled data of some related task or domain. We try to store this knowledge gai…
A tool capable of parsing datasets of papers from pubmed, annotating entities that appear using bio-BERT, creating a network of cooccurrences on which to perform analysis with various algorithms
🧬 Fine-Tuning Large Language and Protein Models on a single T4 GPU via Distillation, Quantization and Low-Rank Adaptation to run inference on proteins functions.
MIL-RBERT: A Data-driven Approach for Noise Reduction in Distantly Supervised Biomedical Relation Extraction (BioNLP @ ACL 2020)
Literature Mining for Neurodegenerative disease
The repo consists of an ML model based on BioBERT by virtue of transfer learning, to detect adverse drug reactions (ADRs). It also consists of the data used by the model.
🔍 Kaggle COVID-19 Open Research Dataset Challenge (CORD-19)
BioBert for Q&A
Ready to use BioBert pytorch weights for HuggingFace pytorch BertModel 😌
A simple binary prediction model that gets the Alzheimer's drugs' description texts as input. It classifies the drugs into two Small Molecules (SM) and Disease modifying therapies (DMT) categories. The model utilizes BERT for word embeddings.
The model identifies chemical components and genes named entities and extracts the relations of the chemical-gene pair jointly. It utilizes the BioBERT model in the named entity recognition and the graphs neural networks for the RE subtasks.
Training and computational/visualization analysis of BERT and BioBERT using PyTorch and huggingface.
NLP Named Entity Recognition dalam bidang Biomedis, mendeteksi teks dan membuat klasifikasi apakah teks tersebut mempunyai entitas plant atau disease, memberi label pada teks, menguji hubungan entitas plant dan disease, menilai kecocokan antara kedua entitas, membandingkan hasil uji dengan menggunakan models BERT
Ping Lab Intern Project, Summar, 2022: Building Named Entity Recognition model with fine tuning BioBERT - a data engineering approach
Implementation and demo of explainable coding of clinical notes with Hierarchical Label-wise Attention Networks (HLAN)
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