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## Overview
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YM_0990 are Trastuzumab designs against HER2. We explored several model hypothesis: (i) Does pre-training aid predicitivity and (ii) does the featurization of the input sequences matter. To test pretraining, we refer to `mata_descriptions` with the term
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## Experimental details
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We studied the efficacy of generating binders with different model hyperparameters. This dataset includes 20828 unique VHHs and 1 unique sequences. In this experiment, we enable designs to span a window that encompasses the frameworks and CDR regions.
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## Overview
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YM_0990 are Trastuzumab designs against HER2. We explored several model hypothesis: (i) Does pre-training aid predicitivity and (ii) does the featurization of the input sequences matter. To test pretraining, we refer to `mata_descriptions` with the term **warm** to include pretraining, and **cold** to start from a randomly initialized seed. For featurization, we explored **label-encoded** sequences with a one-hot-encoder of amino acid identities, versus an **ESM-featurized** embedding to represent each sequence in the PPI.
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## Experimental details
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We studied the efficacy of generating binders with different model hyperparameters. This dataset includes 20828 unique VHHs and 1 unique sequences. In this experiment, we enable designs to span a window that encompasses the frameworks and CDR regions.
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