Differentiable RNA Secondary Structure Extraction for Deep Learning

arXiv:2609.30752 · cs.LG · Submitted 2026-09-25 · Read on arXiv

cs.LG

Submitted: 2026-09-25

Updated: 2026-09-25

Code: https://github.com/TylerIllman/RNA-Secondary-Structure-Extraction

Terminology

• F1 Score — 14× in this paper · explained in 3 episodes
• Accuracy — 5× in this paper · explained in 1 episode
• Benchmark — 4× in this paper · explained in 2 episodes
• Downstream Tasks — 4× in this paper · explained in 2 episodes
• Symmetric Doubly Stochastic Matrix — 4× in this paper
• Loss Function — 3× in this paper · explained in 2 episodes
• Regularization — 3× in this paper · explained in 3 episodes
• Adam — 2× in this paper · explained in 2 episodes
• Computational Biology — 2× in this paper · explained in 2 episodes
• Generalization — 2× in this paper · explained in 13 episodes
• Structural Constraints — 2× in this paper · explained in 2 episodes
• Activation Function — 1× in this paper · explained in 1 episode
• Adjacency Matrix — 1× in this paper · explained in 1 episode
• Conference on Computer Vision and Pattern Recognition — 1× in this paper
• Consistency — 1× in this paper · explained in 3 episodes
• Decoupling — 1× in this paper · explained in 2 episodes
• Generalizability — 1× in this paper · explained in 6 episodes
• Pruning — 1× in this paper · explained in 4 episodes
• Transfer Learning — 1× in this paper · explained in 10 episodes

Sources

• RiNALMo: General-Purpose RNA Language Models Can Generalize Well on Structure Prediction Tasks
• Adam: A Method for Stochastic Optimization

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