3 papers
cs.LG2026
PairSAE: Mechanistic Interpretability from Pair Representations in Protein Co-Folding
Giosue Migliorini, Aristofanis Rontogiannis, Grigori Guitchounts +3
Foundation models for structural biology have achieved remarkable performance in predicting biomolecular structure and show promise for the design of proteins and small molecules.…
stat.ME2025
Robustness intervals for competing risks analysis with causes of failure missing not at random
Giorgos Bakoyannis, Aristofanis Rontogiannis, Ying Zhang +3
Analysis of competing risks data is often complicated by the incomplete or selectively missing information on the cause of failure. Standard approaches typically assume that the ca…
cs.LG2025
Relaxed Sequence Sampling for Diverse Protein Design
Joohwan Ko, Aristofanis Rontogiannis, Yih-En Andrew Ban +2
Protein design using structure prediction models such as AlphaFold2 has shown remarkable success, but existing approaches like relaxed sequence optimization (RSO) rely on single-pa…