Question: What is the recommended amount of PhiX to spike into 10x libraries?
Answer: Our recommendation is to spike-in PhiX with 10x Genomics libraries during the sequencing run. We recommend 1% PhiX on Illumina instruments.
Additional Notes: We do not recommend running 5' CRISPR or Dual Index 3' CRISPR screen libraries alone. Running Single Index 3' CRISPR libraries alone on a NextSeq 500/550 can be performed using 20% PhiX.
For Fixed RNA Profiling, the recommendation for Multiplexed libraries is 10% PhiX, while it is 1% PhiX for Singleplexed libraries.
You can always spike in more, but keep in mind that this will reduce the 10x library output.
Products: Single Cell Gene Expression, Single Cell Immune Profiling, Single Cell ATAC, Fixed RNA Profiling Gene Expression, Single Cell Multiome ATAC+GEX