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There was considerable variability between samples in total milk protein concentration.
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Both approaches model the distribution of count data as negative-binomial or Poisson and account for differences between samples in the total number of reads ("library size").
Data was normalized to account for differences between samples in actual total-RNA loading.
The adjusted difference (SE) between the two samples in total QoL was β = 0.89 (0.52; P = 0.087) in the self-reports and β = –0.98 (0.53; P = 0.066) in the parent-reports.
There were 48 samples in total, evenly divided between the treated and the non-treated groups.
We previously estimated intraclass coefficients [ 28] for all gene expression probes, which represent the percentage of variance in expression between samples over total variance and which reflect the genetic component that contributes to variability in gene expression.
To allow for comparisons between samples differing in the total number of reads, entropy was normalized by division of log 2 of the number of unique productive sequences.
On re-examining expression of CST/BARTs and EBNA1 in these tumours, however, the data showed that little or no differences were observed in gene expression between selected samples and total biopsy samples, arguing for the presence of EBV in the tumour cells themselves.
This conclusion is based on the significant differences in the comparisons between purified samples and total RNA, which suggest that adult differentiating cells express more transcription factors than are expressed in the whole brain (Figs. 2 and 3).
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Reference genes are also used to correct for differences between samples, such as variation in the total quantity of RNA and variation in RT-PCR efficiency.
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