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These subjects consisted of 1,255 HIV- infected and 259 HIV-negative individuals at risk of HIV infection; clinical categories were distributed randomly across plates and batch effects were monitored.
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Batch effects were removed by aligning the within-batch medians for all measurements.
Batch effects were then adjusted by the COMBAT method [ 30].
Experimental batch effects were adjusted for by including experimental batch as a covariate in the statistical model [ 56].
(3) Can batch effects be controlled?
Batch effects are not the only source of unwanted variance.
They can also mistake population stratification of common CNVs for batch effects if true batch effects are minimal.
However for the design in Table 4, the batch effects are nested within sex and time effects and the result of disregarding batch effects can easily be evaluated.
Fourteen independent batches of 100 154 pigs per batch were monitored from birth to PMWS outbreak occurrence.
Mice of batch II were monitored for spontaneous home-cage activity [ 49].
For each soil type duplicate batches were monitored for 4 days at room temperature (20 °C).
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