A PubMed-based dataset, used for the fine-tuning of the BiomedNLP-PubMedBERT-base-uncased-abstract-fulltext model for the context-based classification of the names of molecular pathways.
HuggingFace card of the fine-tuned model.
GitHub link with a notebooks, for the fine-tuning and application of the model.
Citing
If you found the developed datasets to be useful in your research, please cite the following articles:
Ivanisenko, T.V., Saik, O.V., Demenkov, P.S. et al. ANDDigest: a new web-based module of ANDSystem for the search of knowledge in the scientific literature. BMC Bioinformatics 21 (Suppl 11), 228 (2020). https://doi.org/10.1186/s12859-020-03557-8
Ivanisenko, T.V.; Demenkov, P.S.; Kolchanov, N.A.; Ivanisenko, V.A. The New Version of the ANDDigest Tool with Improved AI-Based Short Names Recognition. Int. J. Mol. Sci. 2022, 23, 14934. https://doi.org/10.3390/ijms232314934
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