Potential genetic robustness of Prnp and Sprn double knockout mouse embryos towards ShRNA-lentiviral inoculation

Table 1 Hallmark gene set analyses at E6.5.

Hallmark gene set	WT vs P0S0		WT vs P0S0S-		WT vs P0S0P-		WT vs P0S-
Hallmark gene set	Direction	FDR	Direction	FDR	Direction	FDR	Direction	FDR
Adipogenesis	Up	0.62552876	Up	0.80753343	Down	0.79673023	Up	0.79147888
Apoptosis	Down	0.93132096	Down	0.17156136	Down	0.16934382	Down	0.01640416
Cholesterol homeostasis	Up	0.90561461	Down	0.85373899	Down	0.49413621	Down	0.71885689
E2F targets	Down	0.90561461	Up	0.19319905	Up	0.31979891	Up	0.11180027
Epithelial mesenchymal transition	Down	0.93132096	Down	0.4305476	Down	0.31979891	Down	0.1308924
Hypoxia	Up	0.90561461	Down	0.42575279	Down	0.18867174	Down	0.11180027
Inflammatory response	Up	0.90561461	Down	0.10111071	Down	0.18867174	Down	0.07054624
Interferon alpha response	Down	0.90561461	Down	0.00193216	Down	0.00379274	Down	0.00041329
Interferon gamma response	Down	0.90561461	Down	0.00463537	Down	0.00972725	Down	0.00075138
Notch signaling	Down	0.90561461	Up	0.80753343	Up	0.82613941	Down	0.9957742
Reactive oxygen species pathway	Up	0.90561461	Down	0.01564074	Down	0.18867174	Down	0.17771965
TGF beta signaling	Up	0.90561461	Down	0.57494044	Down	0.557864	Down	0.79147888
Wnt beta catenin signaling	Down	0.90561461	Up	0.19319905	Up	0.18867174	Up	0.10479931
Xenobiotic metabolism	Up	0.62552876	Down	0.80753343	Down	0.68538223	Up	0.95587952

Top margin: Compared genotypes. P0: Prnp^0/0. SO: Sprn^0/0. S-: knockdown of Sprn. P-: knockdown of Prnp. For each knockdown, two independent lentiviral ShRNA vectors were used (see the “Transgenic lines and lentiviral inoculations” section). Left margin: hallmark gene sets [13, 14]. Significantly altered hallmark gene sets are highlighted in boldface (FDR < 0.05) and italicized (FDR < 0.10)

ISSN: 1297-9716