Figure 3

Performance in a representative gene space. Total RNA from HL60 cells treated with tretinoin or vehicle (DMSO) alone were analyzed by LMF in the space of 90 transcripts selected from microarray analysis of the same material. Plots depict log ratios of expression levels (tretinoin/DMSO) reported by both platforms for each transcript, in each of nine classes. Correlation coefficients of the log ratios between platforms within each class are shown. Yellow bars represent microarray findings and green bars LMF findings. Ratios were computed on the means of three parallel hybridizations of the pooled product from three amplification and labeling reactions (microarray) or 10 parallel amplification and hybridization procedures (LMF) for each condition. Basal expression categories are 20-60 (low), 60-125 (moderate), and >125 (high). Differential expression categories are 1.5-2.5× (low), 3-4.5× (moderate), and >5× (high). DMSO, dimethyl sulfoxide.