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When do cheap embeddings beat protein language models? A theoretically-grounded hashing sketch for biological sequence classification

Ali, Sarwan et al.
arXiv (All) · Papers
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genomics
\textbf{Motivation:} Pre-trained protein language models (PLMs) such as ESM-2 have become the default representation for biological sequence tasks, but they are computationally heavy and require GPUs both for embedding and for fine-tuning. Whether they are actually necessary for sequence \emph{class
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