Table 1.

Enrichment of Mitochondrial Gene Sets

Gene List	NGenes	E.S.	Direction	p Value	FDR
HALLMARK_GLYCOLYSIS	239	2.1	Up	5.56 × 10−6	1.90 × 10−5
HALLMARK_OXIDATIVE_PHOSPHORYLATION	227	2.3	Up	0.00048225	0.000618
HALLMARK_INFLAMMATORY_RESPONSE	244	3.5	Up	2.87 × 10−6	1.26 × 10−5
GO_POSITIVE_REGULATION_OF_CYTOKINE_PRODUCTION	448	2.5	Up	8.08 × 10−7	6.63 × 10−6
KEGG_OXIDATIVE_PHOSPHORYLATION	120	2.4	Up	0.00100761	0.001087
GO_MITOCHONDRIAL_MEMBRANE_ORGANIZATION	119	1.6	Up	1.08 × 10−5	2.77 × 10−5
GO_MITOCHONDRIAL_TRANSLATION	111	2.6	Up	0.00020051	0.00027403
GO_MITOCHONDRIAL_TRANSMEMBRANE_TRANSPORT	69	2.1	Up	0.0001381	0.00020221
GO_MITOCHONDRIAL_TRANSPORT	212	1.5	Up	6.87 × 10−5	0.00011741
GO_PROTEIN_LOCALIZATION_TO_MITOCHONDRION	82	1.6	Up	3.96 × 10−5	7.37 × 10−5
GO_MITOCHONDRIAL_PROTEIN_COMPLEX	133	2.6	Up	0.00237101	0.00243029
GO_POSITIVE_REGULATION_OF_MITOCHONDRION_ORGANIZATION	182	1.3	Up	4.92 × 10−6	1.83 × 10−5
GO_PROTEIN_TARGETING_TO_MITOCHONDRION	60	1.8	Up	9.41 × 10−5	0.00015427
PPARGC1A_TARGET_GENE_LIST	24	1.7	Up	0.00013528	0.00020221
GO_GLUTAMINE_FAMILY_AMINO_ACID_METABOLIC_PROCESS	55	1.9	Up	0.00011041	0.000174
GO_CELLULAR_RESPONSE_TO_FATTY_ACID	70	2.7	Up	5.46 × 10−7	6.63 × 10−6
GO_PYRUVATE_METABOLIC_PROCESS	53	2.0	Up	4.99 × 10−5	8.90 × 10−5

NGenes, number of genes; E.S, enrichment score; FDR, false discovery rate.

FRY statistical test results to determine the level of enrichment of various gene sets in NK cells from infected mice versus uninfected controls. Enrichment of different gene sets was determined in NK cells from mice following L. monocytogenes infection compared with uninfected controls, and table shows the number of genes in each gene set, the direction of the enrichment in terms of genes demonstrating upregulation or downregulation after infection, as well as the p value and false discovery rate obtained from applying the FRY variant of the rotational gene set test for differential expression analysis (Wu et al., 2010).