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Pan Li

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Open access Aug 2026

Pretraining Enhances Megabase-Scale Gene Expression Prediction with GeneUnet

GB.GeneUnet, an 837M-parameter transformer-based U-Net pretrained on 6 trillion tokens from multi-species genomes in OpenGenome2 is introduced, extending genomic context to 1 Mb with up to 100× inference speedup over GeneMoE, a preliminary MoE transformer baseline of similar model size pretrained on the same data.

Ning Sun, William de Vazelhes, Pan Li et al. · 0 citations
Open access Dec 2025

DeepAden: an explainable machine learning method for predicting the substrate specificity of nonribosomal peptide synthetases

DeepAden achieves competitive performance compared with state-of-the-art tools on a benchmark dataset, and enabled the identification of two Streptomyces NRPS gene clusters through accurate A-domain substrates specificity predictions.

Jiaquan Huang, Liangjun Ge, Yaxin Wu et al. · 0 citations