Published October 9, 2026 | Version 1.0.0
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BioMiner: A Multi-modal System for Automated Mining of Protein-Ligand Bioactivity Data from Literature — Source Code

Description

This record archives the source code of BioMiner: A Multi-modal System for Automated Mining of Protein-Ligand Bioactivity Data from Literature.

BioMiner integrates multimodal language models, domain-specific models, and supporting tools for extracting protein–ligand bioactivity information from scientific publications.

The archive includes the BioMiner implementation, user interface, BioVista evaluation and data preparation scripts, environment specifications, documentation, and repository-tracked examples and resources.

The accompanying dataset is available at:
https://doi.org/10.5281/zenodo.23258445

Files

BioMiner.zip

Files (133.5 MB)

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md5:74bbbddb7ba36f809b70acf0bdcef917
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Additional details

Related works

Is supplement to
Publication: 10.1101/2025.04.22.648951 (DOI)
Is supplemented by
Dataset: 10.5281/zenodo.23258445 (Other)

Software

Repository URL
https://github.com/jiaxianyan/BioMiner