Single Cell V(D)J Demonstrated Protocol Compatibility Table

Demonstrated Protocol, Last Modified on March 28, 2022, Permalink

Protocol	SC5' V(D)J	SC5' V(D)J with Cell Surface Protein	SC5' V(D)J with 5' CRISPR
Single Cell Protocols - Cell Preparation Guide	✓	✓	✓
Enrichment of CD3+ T Cells from Dissociated Tissues for Single Cell RNA Sequencing and Immune Repertoire Profiling	✓	✓*	✓*
Tumor Dissociation for Single Cell RNA Sequencing	✓*	✓	✓*
Thawing Dissociated Tumor Cells for Single Cell RNA Sequencing	✓	✓	✓*
Single Cell Suspensions from Cultured Cell Lines for Single Cell RNA Sequencing	✓	✓	✓
Removal of Dead Cells from Single Cell Suspensions for Single Cell RNA Sequencing	✓	✓*	✓*
Fresh Frozen Human-Mouse Cell Line Mixtures for Single Cell RNA Sequencing	✓	✓	✓
Fresh Frozen Human Peripheral Blood Mononuclear Cells for Single Cell RNA Sequencing	✓	✓	✓
Cell Surface Protein Labeling for Single Cell RNA Sequencing Protocols	✘	✓	✓
Cell Labeling with dCODE Dextramer® for Single Cell RNA Sequencing Protocols*	✘	✓	✘
Methanol Fixation of Cells for Single Cell RNA Sequencing	✘*	✘	✘
Isolation of Nuclei for Single Cell RNA Sequencing & Tissues for Single Cell RNA Sequencing	✘*	✘	✘

✓ Compatible (tested in-house)
✓* Untested but low risk
✘* Untested but high risk
✘ Not compatible
*Antigen-only analysis is not currently supported by 10x Genomics. For antigen analysis, we recommend staining with dextramer reagents in conjunction with a small panel of TotalSeq C antibodies. This increases the cell calling accuracy of the data. Please contact Tech Support for TotalSeq C antibody recommendations.