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| # FishCaduceus | |
| **FishCaduceus** is a family of single-nucleotide DNA language models developed for cyprinid and comparative fish genomics. | |
| The project provides: | |
| - pretrained FishCaduceus models with 512-bp and 1,024-bp context lengths | |
| - pretraining datasets from seven major cyprinid aquaculture fishes and zebrafish | |
| - cross-species benchmarks for translation initiation, translation termination, splice donor and splice acceptor prediction | |
| - evolutionary constraint benchmarks derived from a 26-fish whole-genome alignment | |
| FishCaduceus is designed for fish genome annotation, cross-species transfer, evolutionary constraint analysis and zero-shot variant prioritization. | |
| ## Resources | |
| - Models: [FishCaduceus organization](https://huggingface.co/FishCaduceus) | |
| - Functional-site benchmark: [FishCaduceus-Functional-Site-Benchmark](https://huggingface.co/datasets/FishCaduceus/FishCaduceus-Functional-Site-Benchmark) | |
| - Evolutionary-constraint benchmark: [FishCaduceus-Evolutionary-Constraint-Benchmark](https://huggingface.co/datasets/FishCaduceus/FishCaduceus-Evolutionary-Constraint-Benchmark) | |
| ## Manuscript | |
| **FishCaduceus: A DNA Language Model for Cyprinid Genomics at Single-Nucleotide Resolution** | |
| The manuscript is in preparation. | |
| ## Contact | |
| Xiao-Qin Xia | |
| Institute of Hydrobiology, Chinese Academy of Sciences | |
| Email: xqxia@ihb.ac.cn | |