BASIC

BASIC assembles full-length antigen receptor gene sequences (BCR and TCR) from single-cell RNA-sequencing (scRNA-seq) data, enabling reconstruction of B-cell receptor (BCR) heavy and light chains at single-cell resolution.

Key Features:

• Single-Cell Resolution: Assembles BCR sequences from individual B cells using scRNA-seq to recover cell-specific heavy and light chains.
• Semi-De Novo Assembly Approach: Employs a semi-de novo strategy that combines reference-based and de novo assembly elements tailored for BCR gene reconstruction.
• Experimental Validation: Validated on nearly 200 single human B cells with single-cell primer-based nested PCR and Sanger sequencing.

Scientific Applications:

• Profiling BCR Diversity: Enables single-cell–level analysis of BCR sequence diversity and clonality.
• Antigen Recognition Studies: Facilitates reconstruction of heavy and light chains for studying individual B-cell antigen specificity.
• Immunology Research: Supports investigation of immune responses, vaccine development, and autoimmune disease by providing full-length receptor sequences.

Methodology:

Integration of scRNA-seq data with a semi-de novo assembly algorithm that combines reference-based and de novo assembly elements to reconstruct full-length heavy and light chain BCR sequences.