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--- |
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license: apache-2.0 |
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--- |
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## About |
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DEER (Dense Enzyme Retrieval) provides a method for finding functionally related human-bacteria isozymes using learned dense vector representations (embeddings). |
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This huggingface repository contains an example dataset for applying the DEER model for isozyme retrieval. |
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The working example dataset contains 5,849 enzyme structures in PDB format, including: |
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- 1,636 eukaryota enzymes as templates |
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- 4,213 bacteria enzymes as the database |
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The full codes and tutorial for using this dataset are available at GitHub: https://github.com/WangJiuming/deer/tree/main. |
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## Citation |
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If you use the model in your research, please cite our paper with the following. |
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``` |
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@misc{liu2025Exploring, |
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author={Liu, H. and Shen, J. and others}, |
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title={Exploring Functional Insights into the Human Gut Microbiome via the Structural Proteome}, |
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year={2025}, |
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note={Manuscript under revision} |
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} |
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``` |
