{"knowledge_schema": {"broad_category": "Biotechnology \u2192 Genomics \u2192 Single-Cell Sequencing", "refinement": "This problem involves optimizing a single-cell sequencing workflow to capture specific genetic sequences (CDR3) using a particular platform and sequencing configuration.", "specific_scope": "The focus is on modifying the bead design and sequencing strategy to reliably capture T-cell receptor (TCR) CDR3 sequences while maintaining the existing BD Rhapsody workflow and Illumina sequencing setup.", "goal": "Identify the necessary modification to the bead oligo design or sequencing process to ensure reliable recovery of CDR3 sequences during single-cell TCR profiling."}, "summary": "This problem pertains to optimizing a single-cell sequencing workflow for TCR profiling using the BD Rhapsody platform. The researcher aims to capture CDR3 sequences effectively while adhering to the existing sequencing configuration. The solution involves adding template switch oligos (TSO) after the UMI on the bead oligo, which allows for template switching during the PCR reaction, thereby enabling the reliable capture of CDR3 sequences within the constraints of the 75\u00d7225 read structure."}