To ensure data quality, we minimized non-biological variability in sample batch processing by running samples from each experimental group in each processing batch.
The Foxes bottled and delivered Jamie's sample batches to friends and fans around the area.
This method introduces a lot of extremely small sample batches greatly increasing gradient variance and, by extension, hindering model convergence.
Sample batches were named by composition of material and particle size, e.g. Al18Ni20 for a mixture of Al particles with 18 nm and Ni particles with 20 nm diameter, respectively.
Experiment-wide systematic technical or "batch" effects such as that caused by RNA extraction on different sample batches were removed using Partek Genomics Suite [ 28].
Coefficients of variation for duplicate serum/plasma aliquots included in all laboratory sample batches were calculated by using the 2 masked standards provided by the National Institute of Standards and Technology (NIST): level 1 (∼60 nmol/L) and level 2 (∼35 nmol/L).
Coefficients of variation for duplicate serum/plasma aliquots included in all laboratory sample batches were calculated by using the variance components model of SAS software (PROC VARCOMP; SAS Institute, Inc., Cary, North Carolina) for the 3 types of quality control samples: NIST level 1, NIST level 2, and each cohort quality control.
Plotting the estimates of these surrogate variables for each sample revealed a pattern whereby samples were clearly grouped by batch and quality.
Since PCA could not distinguish between sample batches, disease severity defined by either FVC or DLCO, or familial or sporadic cases, the filtered dataset was further analyzed in aggregate.
The screening of whole genetic regions in large populations has to be done in batches, by splitting samples into multiples of 96 depending on the pooling strategy (e.g. 384 sample batches for a pooling of 4 samples per lane) and dividing gene regions into overlapping fragments of a maximum size of 1.5 kb.
