AppleAnalysisScienceSeptember 11, 2026

Apple's SimpleDesign jointly models protein sequence and structure

Apple researchers trained SimpleDesign on over 2M sequence-structure pairs with a single-stage end-to-end objective, combining discrete cross-entropy for sequences and a regression objective for structures. The model skips the usual multi-stage autoencoder-plus-latent-generative pipeline and reports competitive results on co-design and unconditional sequence/structure generation benchmarks.

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