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Assay sensitivities ranged from less than 1 to 5000 DNA copies with the exception of IL-12, which had a sensitivity of 42,200 copies.
This threshold value was established considering that the expression levels in normal tissues were less than 200 copies, with the exception of the placenta.
Most of the novel miRNAs were found to exist at low copies, with the exception of dka-miRN14, dka-miRN07, dka-miRN19, dka-miRN27, dka-miRN28, which possessed more than 1,000 reads (Table 4).
Considering the mean protein size for all sixteen analyzed fungi species, we found that duplicated genes are larger than single copy genes for both the secreted and non-secreted sequences and that longer genes have more copies (with the exception of secreted proteins with four or more copies).
IBC cells showed 2.5 7 copies of the oncogene MYC and, although MYC was also amplified in non-IBC cells, the number of copies was lower in non-IBC (1 3 copies) with the exception of SUM159 cells that have a focal MYC amplification (Table 1).
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All genes are present in single copy, with the exception of the duplicated Zygnema trnE uuc) gene, the sequences of which differ at two positions.
If present, all of these genes were single copy, with the exception of the fmtB gene, which was present in multiple copies in 7 of the 17 genomes under study.
In contrast to ptsK, which is present in a single copy with the exception of Oceanobacillus iheyensis, a varying number of paralogs of ptsH and ptsI could be found in some species, mostly Proteobacteria (Table S2, Additional file 1).
Next, we observed that cell pools with relative qp higher than that of the pAID cell pool also have higher rhA1AT transcript copy number, with the exception of pAIDpp Pool 2 which suggests that its translation efficiency of the rhA1AT gene is higher.
We found that single copy genes in 22 eudicot species showed stronger codon bias than non-single copy genes (with the exception of Prunus persica and A. lyrata (Additional file 3).
We analyzed the colonies by restriction digest to assess the allelic status of EZH2 (each of the cell lines examined has two copies of EZH2, with the exception of the RD cells which contain three copies).
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