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The small variations in sensitivity and specificity of single antigens between different studies could be attributed to the use of completely different sample sets.
The assay of oxysterols requires completely different sample preparation, LC conditions (gradient), and mass spectrometry (ion source) from those used in this study.
All the experimental results on the three completely different samples show that the direct I-QH transition does not occur with the onset of strong localization due to Landau quantization [20, 38].
Our studies have focused primarily on reproducing the high Q-factor values for different cycles with one specific design - and completely different samples and designs will be required to determine the impact of environmental effects such as air pressure and humidity variations.
It is important to reiterate that the key genes discussed in the paper such as CABYR, TFF3, MUC5AC, and GSK3B were not only assessed using SAGE, but were also assessed using quantitative PCR in a completely different cohort of samples.
Finally, observing the same gene in a given pathway being deregulated in a completely different manner between samples highlights one of the shortcomings of group-based analysis and highlights the eventual need to move to systems analysis of tumors as individual entities.
It is important to note that the dried cellulosic samples have a completely different supramolecular structure and substrate reactivity from hydrated cellulosic samples [ 7, 10]; additionally, many experiments use cellulose-surface probing molecules (for example, dinitrogen, D2O) that are small relative to the enzymes and a true probe should have similar size to cellulases.
Second, MISO uses a discrete normal distribution (with mean and variance pre-determined by the empirical fragment length distribution in any RNA-Seq sample processed by the same assay) in the place of f while we estimate f from the analyzed RNA-Seq sample in a completely different way (Additional file 1).
