{"knowledge_schema": {"broad_category": "Biotechnology \u2192 Genomics \u2192 Single Cell Sequencing", "refinement": "This problem involves optimizing a single cell sequencing protocol to capture specific regions of TCR transcripts, particularly the CDR3 region, using existing technologies and methodologies.", "specific_scope": "The focus is on enhancing the existing single cell barcoding and sequencing approach to successfully capture and sequence the CDR3 region of TCR transcripts while maintaining the use of the BD Rhapsody system and the 75 by 225 sequencing configuration.", "goal": "Identify the best approach to modify the current protocol to ensure successful capture and sequencing of the CDR3 region in TCR transcripts."}, "summary": "This problem revolves around optimizing a single cell sequencing protocol to capture the CDR3 region of TCR transcripts using the BD Rhapsody system. The student has successfully used a specific bead schematic for other applications but faces challenges with TCR transcript capture. The goal is to find a suitable method to modify the existing protocol, such as incorporating TCR-specific capture oligos or designing primers for PCR amplification, while keeping the sequencing modality and system unchanged. The focus is on ensuring the successful capture of the CDR3 region to achieve the desired sequencing results."}