A novel medical large language model family with 13/70B parameters, which have SOTA performances on various medical tasks
Cross-type Biomedical Named Entity Recognition with Deep Multi-task Learning (Bioinformatics'19)
[EMNLP 2024] This is the code for our paper "BMRetriever: Tuning Large Language Models as Better Biomedical Text Retrievers".
This repository contains the code used for distillation and fine-tuning of compact biomedical transformers that have been introduced in the paper "On The Effectiveness of Compact Biomedical Transformers"
Systematic evaluation of hallucination risks in Large Language Models (GPT-4, Claude 3, Gemini Pro) for clinical proteomics and mass spectrometry interpretation. Production-ready detection framework with comprehensive benchmarks.
BERT-for-BioNLP-OST2019-AGAC-Task2
AGAC-BioNL-OST2009-Task1 BERT+CRF
Cancer-Alterome is a comprehensive and curated dataset that focuses on the investigation of regulatory events caused by gene alteration in the context of cancer.
PheSeq, A Bayesian Deep Learning Model to Enhance and Interpret the Gene Disease Association Studies
Fine-tune with TEA
This repo explores token classification for abbreviation and long-form detection using RoBERTa. We evaluate the impact of adding 50% of the PLODv2-filtered dataset, achieving improved F1 and recall. The repo includes methodology, evaluation using seqeval, and confusion matrix analysis.
About Cross-type Biomedical Named Entity Recognition with Deep Multi-task Learning
End-to-end NER and RE pipeline for biomedical texts focusing on the gut-brain axis using BERT, BioBERT, and PubMedBERT.
An agentic AI research analyst for medical literature. Built with IBM watsonx.ai, Hybrid Search, TableRAG, and Streamlit, and containerized for IBM Cloud Code Engine.
Add a description, image, and links to the biomedical-nlp topic page so that developers can more easily learn about it.
To associate your repository with the biomedical-nlp topic, visit your repo's landing page and select "manage topics."