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BIOINFORMATICS

Bioinformatics

Vaccines induce a diverse repertoire of antibody and cellular responses, which can vary significantly in terms of their contribution to vaccine efficacy. We aim to characterize polyclonal immune responses in a repertoire-wide manner by developing statistical analysis and annotation tools that 1) annotate B cell receptor sequences and determine B cell lineages from immunosequencing data and 2) quantitatively compare repertoire-wide antibody and B cell receptor properties.

Software

Publications

Chaudhury, S., G. D. Gromowski, D. R. Ripoll, I. V. Khavrutskii, V. Desai, and A. Wallqvist. Dengue virus antibody database: systematically linking serotype-specificity with epitope mapping in dengue virus. PLOS Neglected Tropical Diseases. 2017 February 21; 11(2):e0005395. [PDF]

Lee, D. W., I. V. Khavrutskii, A. Wallqvist, S. Bavari, C. L. Cooper, and S. Chaudhury. BRILIA: integrated tool for high-throughput annotation and lineage tree assembly of B-cell repertoires. Frontiers in Immunology. 2017 January 17; 7:681. [PDF]