A Sitewise Model of Natural Selection on Individual Antibodies via a Transformer–Encoder

Abstract excerpt

During affinity maturation, antibodies are selected for their ability to fold and to bind a target antigen between rounds of somatic hypermutation. Previous studies have identified patterns of selection in antibodies using B cell repertoire sequencing data. However, these studies are constrained by needing to group many sequences or sites to make aggregate predictions. In this paper, we develop a...

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