Targeted Gene Expression Analysis Protocols

For Single Cell Preparation and Preservation Protocols, see Sample Prep and Preservation Section 

For Cell Labelling Protocols, see BD® AbSeq Intracellular and Cell Surface Protein Profiling Section or the BD® Single-Cell Multiplexing Kit (SMK and Flex SMK) section

Single Cell Capture and cDNA Synthesis

Single lane cartridge

• Without scanner : Single-Cell Capture and cDNA Synthesis with the BD Rhapsody™ Express Single-Cell Analysis System
  
  • This protocol describes cell loading in the BD Rhapsody™ Cartridge and single-cell capture with the BD Rhapsody™ Express Single-Cell Analysis system.
  • Doc ID: 23-22952(02)
  • Revision date: 11/2022
• With scanner : Single-Cell Capture and cDNA Synthesis with the BD Rhapsody™ Single-Cell Analysis System
  
  • This protocol describes cell loading in the BD Rhapsody™ Cartridge and single-cell capture with the BD Rhapsody™ Single-Cell Analysis System with the BD Rhapsody™ Scanner.
  • Doc ID: 23-22951(02)
  • Revision date: 11/2022

8 lane High Throughput cartridge

• • • With Scanner : BD Rhapsody™ HT Single-Cell Analysis System Single-Cell Capture and cDNA Synthesis
      • This protocol describes cell loading in the BD Rhapsody™ 8-Lane Cartridge and single-cell capture with the BD Rhapsody™ HT Single-Cell Analysis System.
      • Doc ID: 23-24252(03)
      • Revision date: 04/2025
    • Without Scanner : BD Rhapsody™ HT Xpress System Single-Cell Capture and cDNA Synthesis
      • This protocol describes cell loading in the BD Rhapsody™ 8-Lane Cartridge and single-cell capture with the BD Rhapsody™ HT Xpress System.
      • Doc ID: 23-24253(03)
      • Revision date: 04/2025

Sequencing Library Preparation

For use with Enhanced Cartridge Reagent Kit (catalog number 664887 or 667052), do not use with v1 beads or older bead versions.

• BD Rhapsody™ System mRNA Targeted Library Preparation Protocol
  • This protocol provides instructions on creating a single cell mRNA library after cell capture on the BD Rhapsody™ Single-Cell Analysis system or the BD Rhapsody™ Express Single-Cell Analysis system for sequencing on Illumina sequencers.
  • Doc ID: 23-24121(03)
  • Revision date: 01/2025
• BD Rhapsody™ System mRNA Targeted and Sample Tag Library Preparation Protocol
  • This protocol provides instructions on creating single cell mRNA and Sample Tag libraries with the BD RhapsodyTM Single-Cell Analysis system or the BD RhapsodyTM Express Single-Cell Analysis system for sequencing on Illumina sequencers.
  • Doc ID: 23-24122(03)
  • Revision date: 01/2025
• BD Rhapsody™ System mRNA Targeted and BD® AbSeq Library Preparation Protocol
  • This protocol provides instructions on creating mRNA and BD® AbSeq single cell libraries with the BD Rhapsody™ Single-Cell Analysis system or the BD Rhapsody™ Express Single-Cell Analysis system for sequencing on Illumina sequencers.
  • Doc ID: 23-24123(03)
  • Revision date: 01/2025
• BD Rhapsody™ System mRNA Targeted, Sample Tag, and BD® AbSeq Library Preparation Protocol
  • This protocol provides instructions on creating single cell mRNA, Sample Tag, and BD® AbSeq libraries with the BD Rhapsody™ Single-Cell Analysis system or the BD Rhapsody™ Express Single-Cell Analysis system for sequencing on Illumina sequencers. 
  • Doc ID: 23-24124(03)
  • Revision date: 01/2025

For Data Analysis, please see the Bioinformatics Section

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