Protein language models (PLMs) have transferred the latest advances from natural language processing to computational biology. These models, trained on large corpora of protein sequence data, are widely used to translate amino acid sequences into latent-space embeddings, ready for use in diverse downstream tasks (DTs).
arXiv:2608. 12090v1 Announce Type: new Abstract: Protein language models (PLMs) have transferred the latest advances from natural language processing to computational biology.
By Roman Joeres, Ilya Senatorov, Olga V. Kalinina
arXiv:2605. 16331v2 Announce Type: replace-cross Abstract: Protein language models are increasingly used to guide experimental and clinical decisions, yet it is often unclear whether a confident prediction reflects recognition of biological evidence or retrieval of a statistical default.
By Piotr Jedryszek, Oliver M. Crook
arXiv:2607. 12279v1 Announce Type: cross Abstract: Writing a sentence of exactly twelve words; ending a DNA sequence at the right codon; formatting an ASCII table.
By Jacob Dunefsky, Wes Gurnee, Emmanuel Ameisen
arXiv:2512. 15133v3 Announce Type: replace-cross Abstract: Proteins inherently possess a consistent sequence-structure duality.
By Yi Zhou, Haohao Qu, Yunqing Liu, Shanru Lin, Le Song, Wenqi Fan
Writing a sentence of exactly twelve words; ending a DNA sequence at the right codon; formatting an ASCII table. These are all tasks that language models can do that requires tracking how many tokens remain before a target.