Nucleosome Organization around Pseudogenes in the Human Genome

Table 3

The proportion of significant Spearman correlations between nucleosome occupancy and pseudogene characteristics with regard to 79 RP pseudogene families.

	pgene GC	Identity^a	Divergence^a
Predicted	68/77^b ( = 0.817, 68+)^c	41/77 ( = 0.589, 39+)	41/77 ( = −0.622, 2+)
Experimental	3/77 ( = −0.02, 1+)	3/77 ( = −0.106, 1+)	5/77 ( = 0.026, 2+)

The “Identity” and “Divergence” of pseudogenes from the coding sequences of their functional RP genes were taken from Zhang et al. 2002 [27]. The “Divergence” was computed with the program MEGA2, using the Kimura two-parameter model and pairwise deletion.
^bAmong 79 RP pseudogene families, there are two RP pseudogene families whose lengths are not up to 129 bp, a minimum required size for nucleosome occupancy prediction.
^cThe average of the significant Spearman correlation coefficients and the number of positive significant correlations were indicated in the parenthesis.