XAI meets Biology: A Comprehensive Review of Explainable AI in Bioinformatics Applications. - Zhongliang Zhou; Mengxuan Hu; Mariah Salcedo; Nathan Gravel; Wayland Yeung; Aarya Venkat; Dongliang Guo 002; Jielu Zhang; Natarajan Kannan; Sheng Li 001 (CoRR, 2023)

Tree visualizations of protein sequence embedding space enable improved functional clustering of diverse protein superfamilies. - Wayland Yeung; Zhongliang Zhou; Liju Mathew; Nathan Gravel; Rahil Taujale; Brady O'boyle; Mariah Salcedo; Aarya Venkat; William Lanzilotta; Sheng Li 001; Natarajan Kannan (Briefings Bioinform., 2023)

Phosformer: an explainable transformer model for protein kinase-specific phosphorylation predictions. - Zhongliang Zhou; Wayland Yeung; Nathan Gravel; Mariah Salcedo; Saber Soleymani; Sheng Li 001; Natarajan Kannan (Bioinform., 2023)