IgRepertoireConstructor

IgRepertoireConstructor reconstructs individualized antibody repertoires from next-generation sequencing (NGS) and mass spectrometry (MS) data to enable accurate analysis of circulating serum antibodies.

Key Features:

• Error-correction of immunosequencing reads: Implements algorithms to correct errors in NGS immunosequencing reads to support accurate peptide and protein inference.
• Mass spectra validation: Integrates mass spectrometry (MS) data to validate peptide identifications and support empirical confirmation of repertoire constituents.
• Custom protein database construction: Builds individualized antibody protein databases that account for somatic recombination and hypermutations to enable interpretation of circulating antibody spectra.

Scientific Applications:

• Immune response profiling: Enables characterization of circulating antibody repertoires to study host responses to antigens.
• Vaccine development: Supports identification and validation of antibody variants relevant to vaccine-induced responses.
• Autoimmune disease research: Facilitates analysis of autoreactive antibody populations in serum.
• Personalized immunoprofiling: Allows construction of individual-specific antibody databases for personalized analyses of immunological landscapes.

Methodology:

Performs error-correction of immunosequencing reads, constructs custom protein databases reflecting somatic recombination and hypermutations, and validates repertoire entries using mass spectrometry peptide evidence.