Randomization techniques for assessing the significance of gene periodicity results

BMC Bioinformatics

Table 2 Proportion of genes labeled periodic in the randomized data

Dataset	P	R	A	S
	s = 0.05
ALPHA 1C	0.005	0.004	0.015	0.050
ALPHA 2C	0.003	0.002	0.009	0.015
CDC 15	0.001	0.001	0.005	0.013
CDC 28	0.001	0.001	0.010	0.018
ELU	0.001	0.001	0.018	0.050
MALARIA	0.000	0.000	0.002	0.050
	s = 0.10
ALPHA 1C	0.015	0.013	0.036	0.100
ALPHA 2C	0.014	0.013	0.031	0.048
CDC 15	0.007	0.007	0.024	0.047
CDC 28	0.009	0.008	0.037	0.055
ELU	0.003	0.002	0.035	0.100
MALARIA	0.000	0.000	0.004	0.100
	s = 0.20
ALPHA 1C	0.048	0.044	0.086	0.200
ALPHA 2C	0.059	0.056	0.089	0.125
CDC 15	0.047	0.045	0.083	0.133
CDC 28	0.047	0.044	0.118	0.147
ELU	0.011	0.009	0.074	0.200
MALARIA	0.000	0.000	0.010	0.200

Periodicity is determined by thresholds δ_s determined so that a fraction of s of the genes in the original dataset have scores above δ_s.

ISSN: 1471-2105