A KL-divergence metric on inter-motif distance distributions in a centeny representation ranks the accuracy of human T2T genome assemblies at centromeres.
Genome modeling and design across all domains of life with Evo 2
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Dual Triangle Attention achieves effective bidirectional attention with built-in positional inductive bias via dual triangular masks, outperforming standard bidirectional attention on position-sensitive tasks and showing strong masked language modeling results with or without positional embeddings.
Sparse autoencoders on MolFormer reveal position-tracking latents in early layers and atom-in-substructure plus pharmacologically relevant features in later layers, with non-canonical SMILES causing greater representation disruption than invalid ones.
citing papers explorer
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A mathematical framework for centromere-aware evaluation of human genome assemblies
A KL-divergence metric on inter-motif distance distributions in a centeny representation ranks the accuracy of human T2T genome assemblies at centromeres.
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Dual Triangle Attention: Effective Bidirectional Attention Without Positional Embeddings
Dual Triangle Attention achieves effective bidirectional attention with built-in positional inductive bias via dual triangular masks, outperforming standard bidirectional attention on position-sensitive tasks and showing strong masked language modeling results with or without positional embeddings.
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What Does a Chemical Language Model Know About Molecules?
Sparse autoencoders on MolFormer reveal position-tracking latents in early layers and atom-in-substructure plus pharmacologically relevant features in later layers, with non-canonical SMILES causing greater representation disruption than invalid ones.
- From Mechanistic to Compositional Interpretability