Author

Yuan Liang

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Open access Oct 2026

DNA-LLM2Vec: Architecture-Aware Task-Conditioned Adaptation of Decoder DNA Foundation Models

Decoder DNA foundation models pretrain with dense next-token prediction and scale to long sequences, but their representations are directional. This is a poor fit for genomic tasks that need sequence context both upstream and downstream of a locus. Bidirectional masked-language-model encoders supply this context, but t...

Yuan Liang, Ke Zhai, Yu-Jian Gan et al. · bioRxiv · 0 citations