Duncan Ralph

Across 119 monoclonal germinal centers, B cell affinity rises reliably despite divergent phylogenies. Selection is noisy but persistent; mutability limits exploration. A DMS-based landscape shows saturating fitness and survivorship biases.

The paper uses simulation-based deep learning to infer the affinity-fitness response function in germinal centers from experimental data.

This study shows that re-infection with SARS-CoV-2 leads to broader and more potent antibodies against diverse sarbecovirus strains compared to antibodies from a prior infection.

This study shows that higher valency immunogens promote the maturation of VRC01-class antibodies with broader neutralizing activity in animals.

This study identifies cross-reactive antibodies against SARS-CoV-2 and related sarbecoviruses that target conserved epitopes and show broad neutralization potential.

This paper identifies diverse functional antibodies targeting the S2 subunit of SARS-CoV-2 spike, including one with broad neutralization activity across multiple coronaviruses.

The paper curates high-quality human immunoglobulin germline gene reference sets to improve AIRR-seq analysis accuracy and facilitate immunoglobulin gene studies.

The paper presents methods to improve clonal family inference in B cell receptor sequencing by incorporating heavy/light chain pairing information and correcting pairing imperfections.

The paper introduces methods to predict antibody affinity using B cell receptor lineage structures and ancestral evolutionary information.

The paper introduces a method to infer individual immunoglobulin germline genes from B cell receptor sequences, improving accuracy over existing methods.