Table 3.
Correlations of different metrics of LD with sequence descriptors of chromosomal segments
|
Chromosome |
Recombination (cM/Mb) |
Polymorphism density |
GC content |
LINES density |
SINES density |
CpG islands |
|---|---|---|---|---|---|---|
| Correlationsa with LDU | ||||||
| Chr. 6 | 0.82 (0.81) | 0.48 (0.42) | 0.33 (0.4) | –0.37 (–0.43) | 0.32 (0.41) | 0.23 (0.36) |
| Chr. 21 | 0.88 (0.77) | 0.77 (0.69) | 0.50 (0.31) | –0.26 (–0.16) | 0.001 (0.07) | 0.43 ((0.31) |
| Chr. 22 | 0.92 (0.9) | 0.69 (0.66) | 0 (0.06) | 0.22 (0.12) | –0.45 (–0.45) | –0.38 (–0.38) |
| Correlationsa with |D′| | ||||||
| Chr. 6 | –0.68 (–0.73) | –0.35 (–0.34) | –0.24 (–0.33) | 0.33 (0.42) | –0.30 (–0.37) | –0.09 (–0.26) |
| Chr. 21 | –0.79 (–0.7) | –0.57 (–0.49) | –0.36 (–0.22) | 0.04 (–0.1) | 0.03 (0.001) | –0.36 (–0.21) |
| Chr. 22 | –0.75 (–0.78) | –0.63 (0.63) | 0.13 (0.04) | –0.19 (–0.18) | 0.58 (0.43) | 0.34 (0.47) |
| Correlationsa with r2 | ||||||
| Chr. 6 | –0.62 (–0.72) | –0.37 (0.43) | –0.30 (–0.42) | 0.39 (0.45) | –0.37 (–0.48) | –0.14 (–0.28) |
| Chr. 21 | –0.81 (–0.79) | –0.45 (0.38) | –0.36 (–0.32) | 0.15 (0.1) | –0.10 (–0.12) | –0.29 (–0.27) |
| Chr. 22
|
–0.79 (–0.79)
|
–0.69 (0.67)
|
0.1 (0.01)
|
–0.22 (–0.2)
|
0.6 (0.48)
|
0.37 (0.44)
|
-
Note. The correlations are reported for 2-MB bins generated as described in Methods for the Caucasian samples. Similar results were obtained for the other populations studied. All correlations above 0.2 are significant with p < 0.001 derived by bootstrapping. Density of SNPs, LINES, SINES, and GpC islands is calculated as number of features per window.
-
↵a Pearson correlation (Spearman rank correlation)
