Microarray data were normalized against 127 CEPH lymphoblastoid cell lines by quantile normalization.
Array data were normalized against the median intensity array for each experiment using the invariant set normalization method [ 33].
To correct the MS response shift during the run, the raw data were normalized against total integration values.
Data were normalized against β tubulin protein levels.
Beta-Actin was selected as endogenous control and all data were normalized against it.
Data were normalized against OD570 value on day 0 of each vehicle control.
The expression levels were determined using comparative quantification to the negative control and all quantification data were normalized against 2 reference genes, HMBS and TBP.
For experiments examining effect of Indo dose effect, data were normalized against turbidity measurements of lipids initially exposed to fixed amount of triton X-100 but without Indo.
To make semi-quantitative measurements and comparisons on relative gene expression, each gene expression data were normalized against the house keeping gene hARP (human acidic ribosomal protein), and analyzed with the Applied Biosystems Sequence Detection Systems software version 2.3.
Data were normalized against PPIA, which had the lowest coefficient of variation and the best stability value, based on the Normfinder algorithm (http://www.mdl.dk/publicationsnormfinder.htm) out of three tested endogenous controls (PPIA, LRP10 and RPLP0, data not shown), previously found to be suitable for human adipose tissue analyses [19].
Data were normalized against Irf1 [ 36, 37].
