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Tuesday, August 1 • 11:50 - 12:10
Immunoinformatics: Immunology meets Computing

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Recent advances in sequencing technologies enabled obtaining data of scanning adaptive immune receptors: antibodies and T-cell receptors. Such progress allowed to state many immunological problems as computational ones and founded a new field in Bioinformatics — Immunoinformatics. The starting problem in this young field is accurate reconstruction of immune receptors repertoire from immunosequencing data. Even the highest-quality immunosequencing data obtained with modern protocols are prone to high error rate. Thus, distinguishing natural diversity of immune receptors from sample preparation errors is a prerequisite for more advanced immunological problems. One of them is evolutionary analysis of antibodies repertoires. An antibody repertoire is the result of a fast evolution that is achieved by various processes of the secondary diversification. As a result of multiple cycles of the secondary diversification, antibody repertoire represents a set of clonal lineages with various abundances. Each such lineage can be viewed as a clonal tree. Construction of clonal trees on antibody repertoire sequences during immune response allows one to detect functional antibodies — typically the most abundant clonal tree is comprised by antibodies specific to invading antigen.

Our immunoinformatics group at Center for Algorithmic Biotechnology (CAB), SPbU has developed the following toolset for immunoinformatics problems. IgReC — a tool for antibody reconstruction from Illumina MiSeq reads; BarcodedIgReC — a modification of IgReC using information about unique molecular identifiers (UMIs); IgQUAST — a tool for quality assessment of antibody repertoire construction; IgDiversityAnalyzer — a tool for analysis of antibody repertoire diversity; AntEvolo — a novel algorithm for construction of clonal trees for antibody repertoires — is currently being developed in CAB.

avatar for Andrey Bzikadze

Andrey Bzikadze

Researcher, Center for Algorithmic Biotechnology, St Petersburg State University

Tuesday August 1, 2017 11:50 - 12:10
Graduate School of Management Building, room 309 Volkhovskiy Pereulok, 3, St. Petersburg, Russia