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physics.bio-ph2024
Hair cells in the cochlea must tune resonant modes to the edge of instability without destabilizing collective modes
Asheesh S. Momi, Michael C. Abbott, Julian Rubinfien +2
Sound produces surface waves along the cochlea's basilar membrane. To achieve the ear's astonishing frequency resolution and sensitivity to faint sounds, dissipation in the cochlea…
q-bio.BM2024
High fitness paths can connect proteins with low sequence overlap
Pranav Kantroo, Günter P. Wagner, Benjamin B. Machta
The structure and function of a protein are determined by its amino acid sequence. While random mutations change a protein's sequence, evolutionary forces shape its structural fold…
q-bio.BM2024
Pseudo-perplexity in One Fell Swoop for Protein Fitness Estimation
Pranav Kantroo, Günter P. Wagner, Benjamin B. Machta
Protein language models trained on the masked language modeling objective learn to predict the identity of hidden amino acid residues within a sequence using the remaining observab…