Exact(1)
For example, quality can be used in negative identification, where it is in the interest of the subject to provide a poor quality sample.
Similar(59)
For further data quality control, we performed a series of statistical tests to filter out any poor quality samples from the analyses.
Twelve patients were excluded: One because of lacking HIV result, 11 because of poor quality sample material containing no detectable betaglobin DNA (7 HIV positive, 4 HIV negative).
Possible reasons for this could be improper handling during the 1 7 day transit from the field to the NRLs, which in 10 of the 13 countries/regions happened in cool boxes with ice packs rather than in liquid nitrogen, or poor quality sample storage in the laboratories caused by unreliable power supplies in most countries/regions.
The Illumina Vercaode SNP assay used here is not well suited to poor quality sample types as it requires high concentrations of DNA (>25 50 ng−1 μl), but uniplex SNP assays or approaches using rapid parallel SNP genotyping based on nanofluidic dynamic arrays (Wang et al. 2009) are.
These encouraging results, on a limited set of poor quality samples, could also be related to the classification method used, as the GGA-based class prediction strategy aimed at finding the most influential markers for each AML class (top markers with the highest inter-class variance and the lowest intra-class variance).
While Agilent Bioanalyzer measurements showed acceptable total RNA quality profiles for all three methods the RNA degradation plot analysis might be a good way to indirectly identify poor quality samples via their global gene expression signatures on a probe level.
Poor quality samples produced a similar DNA yield and quality following re-extraction.
Figure 2D shows a patient in whom parasites were observed by histology in the gut tissue, but no life cycle correlation was detected using the nCounter® platform, suggesting a poor quality RNA sample.
As 97% of the scaling factor values for the samples examined in this study were ≤ 10.0, this is a practical and attainable cutoff that can accurately identify outlying poor quality samples.
To identify and remove poor quality samples, per-individual QC is applied as a sample missing genotype rate of > 3%.
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