Table 2.
Repetitive element representation within Affymetrix human microarrays
| Microarray platform | LTR | LINE | SINE | Total |
|---|---|---|---|---|
| Human genome u95a v2 affy_hg_u95a_v2 | 191 (0.042) | 95 (0.011) | 0 (0) | 286 |
| Human genome u133a v2 affy_hg_u133a_v2 | 211 (0.046) | 262 (0.030) | 91 (0.006) | 564 |
| Human genome u133 Plus v2 affy_hg_u133_plus_v2 | 3022 (0.671) | 2869 (0.337) | 413 (0.027) | 6304 |
| Human genome u219 affy_hg_u219 | 503 (0.111) | 398 (0.046) | 42 (0.002) | 943 |
| Human genome Focus affy_hg_focus | 18 (0.004) | 71 (0.008) | 9 (0.0006) | 98 |
| Human gene 1.0 ST affy_hugene_1_0_st | 724 (0.160) | 420 (0.049) | 185 (0.012) | 1329 |
Numbers of probes corresponding to LTR, LINE, and SINE elements across a subset of microarray platforms are shown. Shortened platform names correspond to identifiers used within the ‘oligo’ Bioconductor R package. Numbers in brackets indicate the estimated maximum percentage coverage of all individual LTR, LINE, or SINE elements by the microarray probes identified.