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High intra-platform reproducibility of gene expression measurements was considered a key criterion during the evaluation of platforms.
To this end, development and clinical evaluation of platforms to identify signatures of BRCAness are of immense interest.
The outcome of the experiment correlated with previously published data [ 10].> -wrap-foot> List of chemical compounds used for evaluation of platforms.
To this end, development and clinical evaluation of platforms to identify signatures of BRCAness have recently been a subject of intense investigation, especially in triple-negative breast cancer (TNBC), a subtype thought to be enriched for BRCAness [ 7- 9].
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The evaluation of platform design elements is probably the most useful application from a technical point of view as it can be used to asses the impact of a given design element on the user interaction patterns on a platform.
A successful design, without costly and time consuming re-design cycles, can be achieved only by using an efficient design methodology that allows for component re-use and evaluation of platform requirements at the early stages of the design flow.
Only available data from each platform were taken into consideration in our evaluation of platform discordance of expression measurements.
To enable evaluation of platform performance on complex samples the synthetic miRNAs were spiked into two RNA aliquots from the pooled plasma RNA preparation described above.
The evaluation of platform accuracy was based on the following criteria: 1. concordance between the expression levels of commonly represented targets on each array type; 2. agreement in the identification of genes discriminating the three cell lines; 3. concordance of relative expression compared to data obtained from QRT-PCR for subset of 14 genes.
In this paper, we present a methodology for performance evaluation of MOM platforms using the SPECjms2007 standard benchmark.
The term "reproducibility" is a common terminology used in the evaluation of different platforms, studies, gene signatures, etc. [ 42, 43].
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