Table 5.

SuperPaths overrepresented among genes downregulated in the trophectoderm by CSF2

CREB Pathway (score = 17.43)—22 genes

ARHGEF6, AXL, BMP3, CACNA2D3, CACNG6, CLU, EPHA3, EPHB3, FLT1, FLT3, GNA14, GNB5, GNRH1, GRID2, HTR3E, PDE1C, PRKCH, SEMA5A, SLC8A2, TEK, THPO, VAV3

Actin Nucleation by ARP-WASP Complex (score = 14.94)—16 genes

ARHGEF6, AXL, EPHA3, EPHB3, FLT1, FLT3, GNA14, GNB5, ITGAE, ITGB6, LPAR1, LPAR3, MYH1, MYH7, MYO7A, TEK

Akt Signaling (score = 14.53)—24 genes

AXL, BMP15, BMP3, CCL17, CD28, CD80, EPHA3, EPHB3, FCER1G, FLT1, FLT3, GNA14, GNB5, GNRH1, IL10, ITGAE, ITGB6, PRKCH, PXDN, SEMA5A, TEK, THPO, TNFSF8, VAV3

ERK Signaling (score = 14.11)—34 genes

ARHGEF6, AXL, BMP15, BMP3, CACNA2D3, CACNG6, CCL17, CD28, CD80, CDH13, ECM2, EPHA3, EPHB3, FBN1, FLT1, FLT3, GNA14, GNB5, GNRH1, IL10, ITGAE, ITGB6, LAMA4, MUC1, MYC, MYH1, MYH7, MYO7A, PRKCH, PXDN, SEMA5A, TEK, THPO, TNFSF8

TGF-BETA (score = 11.30) 21 genes

ARHGEF6, AXL, BMP15, BMP3, CCL17, CD80, EPHA3, EPHB3, FLT1, FLT3, GNA14, GNB5, GNRH1, IL10, ITGAE, ITGB6, MYC, PXDN, SEMA5A, TEK, THPO

Nanog in mammalian ESC pluripotency (score = 9.82)—17 genes

AQP2, AXL, BMP3, CDH13, EPHA3, EPHB3, FLT1, FLT3, GNB5, GNRH1, LPAR1, LPAR3, PRKCH, SEMA5A, TEK, THPO, WNT8B

Shown are those SuperPaths that were highly significant (P < 0.001) as well as two selected pathways that were P < 0.05 (TGF-BETA and Nanog in Mammalian ESC pluripotency)