Table 1 Detailed QC report of 10X Genomics sequencing files (Cell Ranger).
From: Single-cell transcriptome dataset of human and mouse in vitro adipogenesis models
Raw sequencing sample | SGBS D0, 3T3-L1 D0 | SGBS D8, 3T3-L1 D5 | ||
|---|---|---|---|---|
Number of reads | 320,829,287 | 334,091,518 | ||
Q30 bases in barcodes | 96.9% | 97.5% | ||
Q30 bases in RNA reads | 76.7% | 77.4% | ||
Q30 bases in UMI reads | 96.8% | 97.6% | ||
Mean reads per cell | 31,460 | 49,239 | ||
Processed sample | SGBS D0 | 3T3-L1 D0 | SGBS D8 | 3T3-L1 D5 |
Reads mapped to genome | 30.8% | 58.1% | 51.1% | 41.7% |
Reads mapped to exons | 25.6% | 46.8% | 43.2% | 33.7% |
Reads mapped uniquely to genome | 29.8% | 52.6% | 49.8% | 38.5% |
Estimated number of cells | 5,672 | 5,402 | 3,655 | 3,305 |
Fraction of reads in cells | 94.40% | 94.50% | 93.2% | 93.3% |
Median genes per cell | 2,239 | 3,360 | 3,199 | 3,011 |
Total genes detected | 19,339 | 17,013 | 19,862 | 16,444 |
