Table 2 Proportion of genes expressed in same direction between platforms ignoring expression level. The numbers of genes in matched and mismatched directions are given for each cell line and each platform pair, and agreement is given in percentages.
From: Three microarray platforms: an analysis of their concordance in profiling gene expression
Array Platform: | Cell line: | Direction-matched | Direction-mismatched (ignoring expression level) | Total number of genes used in calculation | Percent agreement in direction |
|---|---|---|---|---|---|
GEM2 & Operon V2 | Jurkat | 4597 | 1373 | 5970 | 77 % |
| Â | L428 | 3535 | 1251 | 4786 | 74 % |
| Â | SUDHL | 4608 | 1525 | 6133 | 75 % |
| Â | Ocily3 | 4094 | 1368 | 5462 | 75 % |
| Â | LNCaP | 4189 | 1333 | 5522 | 76 % |
| Â | MCF10A | 4469 | 1429 | 5898 | 76 % |
| Â | Total | 25492 | 8279 | 33771 | 75 % |
GEM2 & HG-U133A | Jurkat | 3657 | 906 | 4563 | 80 % |
| Â | L428 | 3203 | 918 | 4121 | 78 % |
| Â | SUDHL | 3541 | 809 | 4350 | 81 % |
| Â | Ocily3 | 3826 | 984 | 4810 | 80% |
| Â | LNCaP | 3747 | 1031 | 4778 | 78 % |
| Â | MCF10A | 3584 | 950 | 4534 | 79 % |
| Â | Total | 21558 | 5598 | 27156 | 79 % |
Operon V2 & HG-U133A | Jurkat | 3688 | 795 | 4483 | 82 % |
| Â | L428 | 2909 | 738 | 3647 | 80 % |
| Â | SUDHL | 3520 | 776 | 4296 | 82 % |
| Â | Ocily3 | 3509 | 947 | 4456 | 79 % |
| Â | LNCaP | 3607 | 860 | 4467 | 81 % |
| Â | MCF10A | 3511 | 898 | 4409 | 80 % |
| Â | Total | 20744 | 5014 | 25758 | 81 % |