Flair embeddings from PubMed
A language model available through the Flair framework and embedding method. Trained over a 5% sample of PubMed abstracts until 2015, or > 1.2 million abstracts in total.
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- Biomedical Information Extraction
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- 2026-10-10
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PubMedBERT microsoft.github.io
paper - A BERT model trained from scratch on PubMed, with versions trained on abstracts+full texts and on abstracts alone.
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flair github.com
Very simple framework for state-of-the-art NLP.
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BioInfer corpora.informatik.hu-berlin.de
paper - 1,100 sentences from biomedical research abstracts annotated for relationships (including PPI), named entities, and syntactic dependencies. Additional information and download links are here.
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Assessing the research landscape and clinical utility of large language models: a scoping review doi.org
a high-level review of LLM applications in medicine as of March 2024.
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BiomedCLIP huggingface.co
CLIP-based vision-language foundation model for biomedical images and text trained on PubMed figure–caption pairs.
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BioMedLM huggingface.co
2.7B parameter GPT-2-style language model trained exclusively on biomedical literature from PubMed for biomedical question answering and text generation.
Biomedical Information Extraction › Techniques and Models > Other models: “A language model available through the Flair framework and embedding method. Trained over a 5% sample of PubMed abstracts until 2015, or > 1.2 million abstracts in total.”