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Two copies of this network are connected to each other so that the 'connection density' between them is (k^{-1}), where the connection density is the number of edges between the two copies divided by the number of total possible edges between them.
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The number of HPV copies was divided by the number of cells to calculate the viral load (HPV copies/cell), and the threshold of positivity was 0.0001 HPV copies/cell.
For LOH analysis, the normal allelic balance range was determined to be two standard deviations from the average allelic ratio in which the fluorescence derived from the shorter allele copy is divided by that of the longer allele copy [ 33].
The number of Map cells was calculated from the recovered IS 900 copy number divided by 15, considering there are on average 15 IS 900 copies per single Map cell [ 10].
Reads mapping to a non-unique genome sequence are usually assigned at random to one copy in the genome, therefore the total reads are divided evenly amongst the copies and the apparent abundance of RNA matching each copy is effectively divided by the copy number.
To determine the amount RRS DNA in the DNA extract, the RRS copy number was divided by the copy number of the soybean reference gene (lec) and multiplied by 100 to obtain the percentage value (GM% = RRS/lec * 100).
The relative expression levels of OR genes were normalized by the ratio of the copies of OR genes divided by the copies of β-actin, then the ratios were log10 transformed.
The mean of triplicates of the WT1 gene copy numbers was divided by the mean of duplicates of copy numbers of the β-actin.
For each target gene, absolute copy number was divided by the NF.
Sheet 2 Calculated gene copy numbers (RPKM divided by modal RPKM) for the unique gene list [ 39 ]. (XLS 3352 kb) Additional file 3: Table S2.
To calculate viral fitness scores, copies of DNA produced by test strains were divided by copies of DNA produced by the reference strain at a coincident time point post-infection [Fitness score = (HIV-1 DNAT/HIV-1 DNAR)], where HIV-1 DNAT and HIV-1 DNAR correspond to copies of HIV-1 DNA produced by the test and reference strains, respectively.
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