Identification of Multiple Hypoxia Signatures in Neuroblastoma Cell Lines by - Regularization and Data Reduction

Table 5

Tuning the oxidative phosphorylation signature by changing the 𝜀 parameter.

Cluster^(1)	Probeset^(2)	Gene Name	𝜀=1^(3)	𝜀=100^(4)
1	203189_s_at	NDUFS8	89	89
	203190_at	NDUFS8	56	72
	214241_at	NDUFB8	94	78
	210206_s_at	DDX11	—	50
	211752_s_at	NDUFS7	—	67
	213378_s_at	DDX11	—	50
	226616_s_at	NDUFV3	—	61
	241755_at	UQCRC2	—	50
	243498_at	ATP5J	—	50
2	203371_s_at	NDUFB3	56	89
	218200_s_at	NDUFB2	72	89
	218201_at	NDUFB2	89	94
	203606_at	NDUFS6	—	83
	218190_s_at	UCRC	—	50
	226209_at	NDUFV3	—	56
3	1554847_at	ATP6V1B1	100	94
4	200096_s_at	ATP6V0E	50	56
	214244_s_at	ATP6V0E	72	50
	214923_at	ATP6V1D	—	56
	228816_at	ATP6AP1L	—	67
5	230598_at	SMEK2	72	78
	207335_x_at	ATP5I	—	72
6	204125_at	NDUFAF1	67	83
	222270_at	SMEK2	100	100
	200078_s_at	ATP6V0B	—	50
7	208745_at	ATP5L	89	72
	208746_x_at	ATP5L	72	67
	210453_x_at	ATP5L	50	67
	203039_s_at	NDUFS1	—	67
	203613_s_at	NDUFB6	—	67
	207573_x_at	ATP5L	—	61
8	208972_s_at	ATP5G1	100	100

⁽¹⁾Cluster number according to Figure 2. ⁽²⁾Probeset ID according to Affymetrix HG-U133 Plus 2.0 GeneChip. ⁽³⁾Frequency score (%) as calculated by 𝑙₁-𝑙₂ regularization for the selected probesets by setting 𝜀=1. ⁽⁴⁾Frequency score (%) as calculated by 𝑙₁-𝑙₂ regularization for the selected probesets by setting 𝜀=100.