Table 3.
eSNP analyses.
| Normalization | Pearson correlation |
Spearman rank correlation |
||||
|---|---|---|---|---|---|---|
| Total (NLP 8) | Cis (NLP 5) | Cis (NLP 8) | Probes (NLP 8) | Cis (NLP 8) | Probes (NLP 8) | |
| RAW | 552 | 1183 | 411 | 39 | 324 | 36 |
| MEA | 1082 | 2009 | 743 | 77 | 703 | 71 |
| dr3 | 627 | 1362 | 455 | 44 | 407 | 46 |
| DRM | 959 | 2150 | 761 | 87 | 747 | 77 |
| IQR | 935 | 1708 | 603 | 71 | 565 | 73 |
| LMN | 484 | 1281 | 439 | 44 | 394 | 44 |
| QNM | 1211 | 2288 | 842 | 88 | 791 | 81 |
| SNM | 969 | 2084 | 825 | 86 | 821 | 81 |
| PCA | 602 | 1563 | 585 | 73 | 505 | 74 |
The Table reports the total number of associations detected between 34,548 Chromosome 6 SNPs and 732 Chromosome 6 Probes, respectively including total (trans and cis) associations at NLP 8; just cis-associations at NLP 5 or NLP 8 (defining cis as eSNPs within 250 kb of the probe); the number of independent probes with eSNPs at NLP 8 (all using Pearson correlation with the transcript abundance); and then the cis-associations and number of independent probes at NLP 8 using Spearman rank correlation.