Identification of key player genes in gene regulatory networks

BMC Systems Biology

Table 1 Identified genes in the MDS and MCDS (ILP) for 10 modules of the breast cancer network

Method	Module	Network size	Result size	Key driver genes
MCDS	Black	41	5	ZNF254, KIAA1632, ZNF681, SEC24B, ZNF615
MDS			5	ZNF254, KIAA1632, ZNF681, SEC24B, ZNF615
MCDS	Blue	247	3	FAM54A,ACAN, GLDC
MDS			2	ACAN, FAM54A
MCDS	Brown	195	1	AATK
MDS			1	AATK
MCDS	Green	110	18	ADPRHL2, AKT1, LTBR, MAN2C1, SH3GLB2, UTP14A, WDR55, MADD, B4GALT7, OS9, MYO1C, CDC34, CDC37, RBM19, MARS, CCDC22, MAP2K2, DAP
MDS			17	ADPRHL2, LTBR, HMG20B, HK1, SH3GLB2, UTP14A, ELK1, MED6, B4GALT7, OS9, MYO1C, CDC34, CLN3, INPPL1, DAP, PLXNB1, TIMM44
MCDS	Magenta	26	4	ILF2, BGLAP, POGK, ATF6
MDS			4	ILF2, BGLAP, ATF6, VPS72
MCDS	Pink	30	5	TCEB1, RAB2A, ZNF706, TMEM70, ATP6V1C1
MDS			5	TCEB1, RAB2A, TMEM70, TCEA1, ATP6V1C1
MCDS	Red	93	13	SIX4, SP1, ATP1B1, PCGF1, SUMF2, EPN3, GTF3A, RAP1B, FHL3, RPS3A, ABCB8, GFAP, ANXA5
MDS			13	LSM11, SIX4, PCGF1, SUMF2, EPN3, ZNRF2, GTF3A, RAP1B, FHL3, RPS3A, ABCB8, GFAP, NAGA
MCDS	Tur quoise	295	1	ABHD10
MDS			1	ABHD10
MCDS	Yellow	132	20	CASP10, TSPAN2, ACSL6, HDAC11, SLC7A7, TRAF3IP3, GZMK, PAG1, LAP3, HTRA4, CD79B, SPI1, GCET2, WAS, DFNA5, LRRC33, FCRL2, LCP2, TCTEX1D1, FUT4
MDS			20	CASP10, TSPAN2, ACSL6, HDAC11, TLR9, SLC7A7, FAM129C, TRAF3IP3, HTRA4,SPI1, CPXM2, GCET2, FASN, SLFN11, DFNA5, ETS1, PLS3, LCP2, TCTEX1D1, FUT4

The genes, whose protein products are known to be targeted by drugs, are marked in bold

ISSN: 1752-0509