Illustrative Notes Upon PTEN In Specific Order

The data distribution exhibited a correlation with the GC content distribution in?some regions of the genomes (Figures PTEN 1B�C1D). Accordingly, we examined how the single-cell sequencing reads were distributed across the genome relative to the GC content, and the distribution pattern of the reads showed that the GC content effected the even distribution of amplification products from single-cell WGA, with regions of extreme GC content showing lower amplification efficiency (Figure?S1F). The median GC content in places with 0 coverage (i.e., amplification failure) in gene-coding sequence regions and the whole genome was 60.12% and 49.40%, respectively. These percentages were higher (p value?TSA HDAC manufacturer depth using the multicell sample sequence as a control and determined the ADO per PD0332991 cell as the median of false?negative ratios (Figure?S2A). The average ADO ratio for all single cells was 11% (Table 1), which is comparable to that of previous analyses (Spits et?al., 2006), indicating that the single-cell sequences are of standard quality. As an additional means to determine the specificity and fidelity of single-cell sequencing, we evaluated the false discovery rate in the single-cell sequencing data. The false discovery ratio is defined as a false discovery (FD) heterozygous site in a homozygous sample, which might arise due to amplification, hybridization, or sequencing errors. Taking the multicell sample sequence as control, we found that only two?three bases in the single-cell sequencing were discrepant within a subset of 99,152 high-confidence homozygous background sites, indicating that our single-cell sequencing had an extremely low error rate. The average false discovery ratio of our single-cell sequencing was ?2.52?�� 10?5 (Table 1), which was similar to that of the multicell sample sequencing using the same sequencing platform, according to a previous report (Bentley et?al., 2008). As YH was a male, we further assessed our data quality by determining the false heterozygous allele rate across the X chromosome between each single cell and the multicell sample sequencing data (Figure?S2B).