BASE

BASE analyzes single-cell immunoglobulin cloning data to perform immunological annotation, identify cloning primers, confirm plasmid sequence identity before expression, and support repertoire analysis of patient-derived recombinant monoclonal antibody libraries.

Key Features:

• Two-Module Architecture: BASE comprises two modules, aBASE and cBASE, each handling distinct analysis tasks.
• aBASE (Annotation and Cloning Primer Lookup): Provides immunological annotations and cloning primer identification, matching manual analyses with 100% identity for most outputs and 96% correctness for immunoglobulin isotype determination.
• cBASE (Plasmid Sequence Identity Confirmation): Confirms plasmid sequence identity prior to expression and autonomously generates expression recommendations in 89.8% of cases, with 91.8% concordance to manual results and zero false positives.
• Automation and Efficiency: Automates critical steps in monoclonal antibody generation workflows to reduce repetitive processing time.
• Validation and Reliability: Comparative analyses against manual methods demonstrate high concordance rates and validate output accuracy.
• Unique Functionalities: cBASE’s pre-expression plasmid sequence confirmation provides a capability not available in the existing software described.

Scientific Applications:

• Repertoire Analysis of Patient-derived Recombinant Monoclonal Antibodies: Enables sequence-level analysis and annotation of antibody repertoires from patient-derived libraries.
• Autoimmune Disease Research: Facilitates investigation of B cell roles in autoimmune diseases affecting the human brain by enabling efficient annotation and cloning tracking.
• Single-cell Monoclonal Antibody Cloning Workflows: Supports tracking and decision-making during cloning from single B cells through automated expression recommendation generation.

Methodology:

Performs immunological annotation, cloning primer lookup, plasmid sequence identity confirmation, automated expression recommendation generation, and comparison to manual analyses for validation.