Gene Expression Network Reconstruction by LEP Method Using Microarray Data

Table 2

The number of edges connected with each gene in GSE6536 data example.

No.	Gene	LEP	LASSO	SCAD	Gene functions
1	ABCF1	0	9	1	ATP-binding cassette
2	EIF3D	0	8	1	Eukaryotic translation initiation factor 3
3	SRP14	0	8	1	Signal recognition particle 14 kDa (homologous Alu RNA-binding protein)
4	RPL28	0	8	0	Ribosomal protein L28
5	EIF3F	0	8	0	Eukaryotic translation initiation factor 3
6	CYP2A6	3	7	3	Cytochrome P450
7	RPL35	0	7	2	Ribosomal protein L35
8	GDI2	0	7	1	GDP dissociation inhibitor 2
9	RPL11	0	7	1	Ribosomal protein L11
10	GAS6	3	6	3	Growth arrest-specific 6
11	DAD1	1	6	2	Defender against cell death 1
12	RPL21	0	6	1	Ribosomal protein L21
13	EPHB3	3	5	3	EPH receptor B3
14	MMP14	2	5	4	Matrix metallopeptidase 14 (membrane inserted)
15	ESRRA	2	5	3	Estrogen-related receptor alpha
16	PRPF8*	2	5	0	PRP8 pre-mRNA processing factor 8 homolog (S. cerevisiae)
17	HSPA6	1	5	2	Heat shock 70 kDa protein 6 (HSP70B′)
18	PARK7	1	5	2	Parkinson protein 7
19	TARDBP	0	5	4	TAR DNA-binding protein
20	SEPT2	0	5	0	Septin 2
21	DDR1*	3	4	0	Discoidin domain receptor tyrosine kinase 1
22	TRADD	1	4	2	TNFRSF1A-associated via death domain
23	EIF4G2	0	4	1	Eukaryotic translation initiation factor 4 gamma
24	CAPNS1	0	4	0	Calpain, small subunit
25	PLD1	1	3	2	Phospholipase D1
26	UBA7*	2	2	0	Ubiquitin-like modifier activating enzyme 7
27	CYP2E1	0	2	1	Cytochrome P450
28	FNTB	1	1	1	Farnesyltransferase
29	GUCA1A	0	1	1	Guanylate cyclase activator 1A (retina)
30	CCL5	0	0	0	Chemokine (C-C motif) ligand 5

∗Indicates LEP exclusive genes.