Qi Si — accepted AI-conference papers

2026

FLAG: Foundation model representation with Latent diffusion Alignment via Graph for spatial gene expression prediction

Qi Si, Penglei Wang, Yushuai Wu, Yifeng Jiao, Xuyang Liu, Xin Guo +2

ICML 2026poster

Predicting spatial gene expression from routine H\&E makes high-resolution molecular profiling accessible at scale, especially for large retrospective cohorts. However, current models mostly treat gene expression as a series of pointwise tasks. While effective for numerical fitting, this approach ov…

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2026

Structure-based RNA Design by Step-wise Optimization of Latent Diffusion Model

Qi Si, Xuyang Liu, Penglei Wang, Xin Guo, Yuan Qi, Yuan Cheng

AAAI 2026technical

RNA inverse folding, designing sequences to form specific 3D structures, is critical for therapeutics, gene regulation, and synthetic biology. Current methods, focused on sequence recovery, struggle to address structural objectives like secondary structure consistency (SS), minimum free energy (MFE)

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