PPDiff: Diffusing in Hybrid Sequence-Structure Space for Protein-Protein Complex Design
Fuente:
arXiv
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| Main Authors: | Song, Zhenqiao, Li, Tiaoxiao, Li, Lei, Min, Martin Renqiang |
|---|---|
| Format: | Preprint |
| Published: |
2025
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| Subjects: | |
| Online Access: | |
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