Better Protein Function Prediction by Modeling Survivorship Bias
Fuente:
arXiv
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| Main Authors: | Chao, Zhongmou, Buathong, Poompol, Selivanovitch, Ekaterina, Daniel, Susan, Frazier, Peter I. |
|---|---|
| Format: | Preprint |
| Published: |
2026
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| Subjects: | |
| Online Access: | |
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