Data underlying the figures in the publication “Optimization of therapeutic antibodies by predicting antigen specificity from antibody sequence via deep learning” published in Nat Biomed Eng, 2021, https://doi.org/10.1038/s41551-021-00699-9 The dataset contains a .zip folder with the scripts to perform therapeutic antibody optimization with deep learning, as described in Mason et al., 2019 [https://doi.org/10.1101/617860]. The detail description of the code availability, preparation, and usage can be found in the following github repository: https://github.com/dahjan/DMS_opt.