AIRRscape

AIRRscape analyzes B-cell receptor (BCR) repertoires from AIRR-seq datasets to aggregate sequences by germline V-gene, J-gene, and CDR3 length and to characterize CDR3 motif relationships for comparative repertoire analysis.

Key Features:

• Sequence binning by germline genes and CDR3 length: Aggregates and sorts sequences into bins based on germline V-gene, J-gene, and CDR3 length for high-level repertoire summarization.
• Comparative repertoire analysis: Enables comparison among multiple BCR repertoires to identify shared and unique sequence features across samples.
• CDR3 motif network topology: Generates network topologies of CDR3 motifs and applies network analysis to represent relationships among sequences and assess convergence and diversity.
• Integration of AIRR-seq and monoclonal antibody sequences: Facilitates comparison of AIRR-seq antibody repertoire data with published monoclonal antibody sequences to detect recurrent or convergent antibodies across datasets.

Scientific Applications:

• Humoral immunity analysis: Compare patient BCR repertoires and monoclonal antibody sequences to investigate humoral immune responses.
• Pathogen-specific repertoire studies: Analyze repertoire features relevant to SARS-CoV-2, HIV-1, and DENV (dengue virus) immune responses, including identification of convergent sequences.
• Vaccine and broadly neutralizing antibody research: Support identification of recurrent sequence motifs relevant to vaccine development and broadly neutralizing antibody discovery.
• Diversity and convergence assessment: Characterize repertoire diversity and sequence convergence across samples to inform immunological hypotheses.

Methodology:

Processes AIRR-seq antibody repertoire data, aggregates sequences into bins by germline V-gene, J-gene, and CDR3 length, and applies network analysis to CDR3 motifs to characterize sequence relationships and convergence.