recAMPLIFY: Large-Scale Pretraining of Recursive Protein Language Models
Protein language models (pLMs) are powerful tools for protein annotation and mutation-effect prediction, but progress has largely depended on scaling model size and data, making them expensive and prone to memorization. Test-time scaling offers a complementary path, but methods developed for autoregressive LLMs do not transfer directly: masked encoders lack a generation loop, and amino acids do not verbalize in a reasoning language. Instead, we adapt recursive pretraining to masked pLMs, where a weight-tied Transformer core refines residue-aligned hidden states over an adjustable number of cycles. We instantiate this recipe as recAMPLIFY, a pLM with 155M unique parameters trained on the s...
| Authors | Saurav Jha, Qianli Liao, Robert Vernon et al. |
|---|---|
| Primary category | cs.LG |
| Published | 19 October 2026 |
| Last updated at source | 19 October 2026 |
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