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This Cy3-labelled aRNA was served as an universal reference (see below) to provide consistent slide-to-slide and experiment-to-experiment comparability.
Finally, the proposed ratio difference between platforms using an universal reference sample (as also indicated in [ 25]) can serve as a measure for interplatform correspondence per individual gene.
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In an attempt to establish a universal reference, Andreeva presented in 1991 a structural template to describe the peptidase fold of pepsins [ 21] and showed that retroviral LTRCAPs also fit into this template (for a more detailed overview of pepsins, see [ 22]).
The aforementioned reasons may be valid for using a universal reference in an area where osteoporosis treatment is based on the assessment of fracture risk.
Genomic DNA is an attractive candidate for use as a universal reference, especially for bacterial systems with a low percentage of non-coding sequences.
To ensure robustness and flexibility in data analysis, a reference design was used with a universal reference sample (Stratagene) serving as a baseline for the comparisons of cell line samples.
The validity of the calculations was dependent on the use of a consistent standard, making a universal reference essential for the cross-sample comparison.
Although the limitations of DGV are well known in terms of accuracy and overestimation, we cannot rule out the possibility that some high-level CNAs identified in this study are copy CNVs because we used DNA from a single individual as a universal reference.
Each sample from an individual bird was hybridized on a separate array along with a universal reference sample of genomic DNA pooled from 4 zebra finches (two males and two females) labeled with Cy5.
Furthermore with the ability to re-use a single control gene expression data set, it becomes possible to define a single standard control population for a disease study and establish a universal reference data set of gene expression values.
This technique yielded the relative expression level for each gene as compared with a universal reference RNA, producing an expression profile for each gene.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com