Gene expression analysis by BeadArray. RNA samples from six human ES cell lines and one human EC line were analyzed by Illumina BeadArray, and scatterplots were made by comparing individual lines with pooled ES cell samples. Genes that were detected at >0.99 confidence from the array were labeled blue, and genes falling outside of the red lines were detected at >2.5-fold difference. Total gene numbers and values of the correlation coefficient (r
2) of all comparisons were summarized in the table.