When Ann interviews a potential copy editor, she will say: are you a good speller?
Therefore, genomic sequence information derived from our RRL contigs will contribute to establishing an annotated white-tailed deer repeat library, and may also help elucidate potential copy number variants.
Examination of the distribution of coverage across all final contigs provided evidence for unmasked repeats as well as potential copy number variants, with 536 contigs that possessed ≥20X coverage.
Unmasked repeats and/or potential copy number variants were apparent based on the observed depth of coverage achieved for the final contigs (see Table S1), with 392 contigs that possessed ≥20X coverage.
In addition, our results support ERBB2 as a potential copy number driver gene in EOC.
CNVer (Medvedev et al., 2010) uses PE and RD signals to identify potential copy number changes.
These data revealed that potential copy number variable (CNV) regions from the six samples cover 64% of the genome.
Potential copy number variation of the cyp21a2 gene (as can occur in humans) did not appear to confound variant discovery.
This approach also allows, for each sample, a statistical estimate of the confidence in the calling of that particular copy number compared to all other potential copy numbers.
They include ERBB2, TPM3, BRCA1, BRAF, KRAS, and PIK3CA; some of which are potential copy number drivers e.g. PIK3CA and BRAF in serous histotypes.
