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The designs of NGS having a high depth of coverage and robust analytical pipelines can lead to the successful detection of a wide range of genomic defects in PCC/PGL.
The Illumina sequence reads are likely to represent the entire genomes of E-Pae and I-Pae given their high depth of coverage.
In studies with a high depth of coverage it is the sequencing error rate (both sequencing and PCR errors) that is the limiting factor in the identification of very rare variants.
The high yield and low error rate of HTS technologies allows genome re-sequencing to a high depth of coverage.
In our case, duplicate reads constitute ∼95% of all reads (because of the high depth of coverage of our data).
Omental exomes were sequenced with a high depth of coverage to thoroughly explore the variants in metastatic lesions.
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We sequenced all strains to high depths of coverage (2643 – 5631x; Additional file 1: Table S1).
For the protein coding genes mentioned above no additional matching reads were found, but the 5S-RNA-D2 gene and the nucleolus organising region (Nor-D3) were detected at high depths of coverage.
Furthermore, ustacks collapsed over 6000 repetitive SbfI RAD loci in the stickleback genome into a smaller number of loci with very high depths of coverage, as indicated by the long right tail of the distribution that stretches far beyond the truncated display in the figure.
Illumina reads, despite being much shorter, provide a higher depth of coverage than 454 reads.
Peak DOC refers to the approximate highest depth of coverage noted for that transcript.
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CEO of Professional Science Editing for Scientists @ prosciediting.com