When microarray technology was new, some researchers held that a well-designed experiment, using the same technician, lab and platform, could eliminate batch effects completely; as a result, many published reports of microarray data ignored batch effects in their analyses and even in their discussions.
At three pH levels (5.0, 5.5, 7.0), and using the same pH lab as in experiment 1, we compared growth of age 0+ parr between cross-types over a 109-day period.
The prevalence of diabetes measured in this survey (12.5%) was significantly higher than the published national NHANES estimate of 9.3%9595% CI 8.39 10.23) from 1999 to 2002, using the same methods, labs, and standards (1).
To achieve methylation frequencies that were directly comparable, all analyses have been performed in the same lab, using the same experimental procedures and the same tissue sample sets.
We also show that MMC produces coexpressions that are more concordant across replicate datasets generated by the same lab using the same strains but generated at different times.
The high values for intra-center variability detected in five from ten labs participating in a repetition of the experiment showed that even when a staining is repeated in the same lab by using the same protocol it does not automatically lead to similar results (Supplementary table 2).
We also constructed a second VN reference signal using the same normal in-lab sample set as a template and the results were compared to assess the usability of a VN with Hapmap.
Even the techniques used by the same lab might undergo subtle changes throughout time, causing a drop in model performance when the model is applied on new patient samples.
A closer look at the results indicated that the variability between two labs using the same technology was higher than that between two technologies within the same lab.
Using the within-platform variability as a benchmark, we found that these technology platforms exhibited an acceptable level of agreement, but the agreement between two technologies within the same lab was greater than that between two labs using the same technology.
