Gene and protein expression profiles in the foetal liver of the pregnant rat fed a low protein diet

Genes & Nutrition

Table 2 GSEA analysis of pathways up or downregulated by protein deficient diet in the foetal liver

Name	Size	ES	NES	NOM p value	FDR q value	FWER p value	Function
Upregulated in HP compared to LP
YAO_P4_KO_VS_WT_UP	52	0.573	2.015	0	0.015	0.013	Upregulated following progesterone stimulation
STEMCELL_COMMON_DN	39	0.546	1.816	0	0.140	0.222	Depleted in stem cells compared to differentiated
IDX_TSA_UP_CLUSTER1	20	0.619	1.802	0.001	0.115	0.262	Downregulated following differentiation of 3T3-L1 preadipocytes
HIPPOCAMPUS_DEVELOPMENT_POSTNATAL	43	0.524	1.782	0.001	0.117	0.343
IGF1_NIH3T3_UP	31	0.553	1.759	0.001	0.128	0.441	Upregulated by treatment of NIH3T3 cells with IGF-1
ST_ERK1_ERK2_MAPK_PATHWAY	26	0.570	1.747	0.004	0.123	0.48	The Erk1 and Erk2 MAP kinase pathways regulated by Raf, Mos, and Tpl-2
PGC1APATHWAY	20	0.600	1.735	0.001	0.127	0.542	PCG-1a is a coactivator for receptors
BIOPEPTIDESPATHWAY	36	0.521	1.703	0.009	0.163	0.683
ELONGINA_KO_UP	104	0.434	1.689	0.001	0.170	0.742
VEGFPATHWAY	24	0.557	1.671	0.004	0.191	0.808	Vascular endothelial growth factor (VEGF) promotes blood vessel formation
POD1_KO_DN	352	0.393	1.670	0.000	0.174	0.808
ECMPATHWAY	20	0.575	1.662	0.009	0.176	0.835	Extracellular matrix induces integrin-mediated FAK phosphorylation
Downregulated in HP compared to LP
DCPATHWAY	17	−0.535	−1.783	0.008	0.186	0.358	Secretion of cytokines
CYTOKINEPATHWAY	18	−0.441	−1.543	0.033	0.482	0.916	Differential chemokine receptor expression

All genes on the chip were ranked by difference in expression between high and low protein diets using the t test. An enrichment score (ES) was assigned to each gene, and the maximum ES (MES) was calculated for each gene set
NES enrichment score normalised for differences in gene set size; FDR q value False Discovery Rate; FWER p value Family Wise Error Rate

ISSN: 1865-3499