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q-bio.QM2026
Beyond Tokens: Probing Higher-Order Epistasis in Learned Protein Representations
Maryam Rahimimovassagh, Ivan Garibay, Niloofar Yousefi
Protein fitness landscapes contain nonlinear interactions in which mutation effects depend on other residues. We introduce ORBIT, an Order-Resolved Benchmarking of Interaction Tran…
q-bio.QM2025
BIOGEN: Evidence-Grounded Multi-Agent Reasoning Framework for Transcriptomic Interpretation in Antimicrobial Resistance
Elias Hossain, Mehrdad Shoeibi, Ivan Garibay +1
Interpreting gene clusters from RNA sequencing (RNA-seq) remains challenging, especially in antimicrobial resistance studies where mechanistic insight is important for hypothesis g…