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Table 2 Gene sets significantly associated with positive phase:infection t statistics

From: Murine host response to Neisseria gonorrhoeae upper genital tract infection reveals a common transcriptional signature, plus distinct inflammatory responses that vary between reproductive cycle phases

Gene set source and type

Gene Set Name

Normalized Enrichment Score (NES)

Nominal p value

FDR q value

Reactome pathway

REACTOME_INTERFERON_ALPHA_BETA_SIGNALING

2.50

0.000

0.000

GO Molecular Function

GO CHEMOKINE_ACTIVITY

2.34

0.000

0.000

GO Molecular Function

GO CHEMOKINE_RECEPTOR_BINDING

2.19

0.000

0.001

GO Molecular Function

GO CALMODULIN_BINDING

1.99

0.000

0.045

GO Biological Process

GO RESPONSE_TO_OTHER_ORGANISM

1.99

0.000

0.037

GO Biological Process

GO MYELOID_CELL_DIFFERENTIATION

1.97

0.000

0.040

KEGG pathway

KEGG_OLFACTORY_TRANSDUCTION

1.95

0.000

0.043

GO Molecular Function

GO G_PROTEIN_COUPLED_RECEPTOR_BINDING

1.95

0.000

0.038

BioCarta pathway

BIOCARTA_NFKB_PATHWAY

1.95

0.000

0.036

GO Molecular Function

GO ANION_TRANSMEMBRANE_TRANSPORTER_ACTIVITY

1.93

0.000

0.040

BioCarta pathway

BIOCARTA_TNFR2_PATHWAY

1.93

0.000

0.038

KEGG pathway

KEGG_TOLL_LIKE_RECEPTOR_SIGNALING_PATHWAY

1.91

0.002

0.047

Reactome pathway

REACTOME_CGMP_EFFECTS

1.90

0.002

0.049

GO Biological Process

RESPONSE_TO_VIRUS

1.87

0.002

0.064

KEGG pathway

KEGG_CYTOSOLIC_DNA_SENSING_PATHWAY

1.86

0.000

0.071

KEGG pathway

KEGG_TYPE_I_DIABETES_MELLITUS

1.85

0.002

0.076

KEGG pathway

KEGG_NOD_LIKE_RECEPTOR_SIGNALING_PATHWAY

1.84

0.002

0.075

Reactome pathway

REACTOME_OLFACTORY_SIGNALING_PATHWAY

1.84

0.000

0.072

Reactome pathway

REACTOME_TRAF6_MEDIATED_IRF7_ACTIVATION

1.82

0.004

0.087

GO Biological Process

GO DETECTION_OF_STIMULUS

1.81

0.000

0.092

GO Molecular Function

GO CYTOKINE_ACTIVITY

1.81

0.000

0.095

TF motif

GOGTTRYCATRR_UNKNOWN

1.80

0.000

0.097

BioCarta pathway

BIOCARTA_TALL1_PATHWAY

1.79

0.009

0.098

Reactome pathway

REACTOME_INTERFERON_SIGNALING

1.79

0.000

0.097

KEGG pathway

KEGG_RIG_I_LIKE_RECEPTOR_SIGNALING_PATHWAY

1.79

0.000

0.095

Reactome pathway

REACTOME_NUCLEOTIDE_BINDING_DOMAIN_LEUCINE_RICH_REPEAT_CONTAINING_RECEPTOR_NLR_SIGNALING_PATHWAYS

1.78

0.004

0.097

TF motif

STTTCRNTTT_V$IRF_Q6

1.78

0.000

0.095

Reactome pathway

REACTOME_RIG_I_MDA5_MEDIATED_INDUCTION_OF_IFN_ALPHA_BETA_PATHWAYS

1.78

0.000

0.093

GO Biological Process

DEFENSE_RESPONSE

1.78

0.000

0.090

Reactome pathway

REACTOME_DEGRADATION_OF_THE_EXTRACELLULAR_MATRIX

1.77

0.003

0.094

Reactome pathway

REACTOME_NITRIC_OXIDE_STIMULATES_GUANYLATE_CYCLASE

1.77

0.007

0.096

Reactome pathway

REACTOME_HS_GAG_BIOSYNTHESIS

1.76

0.007

0.098

TF motif

GGGNNTTTCC_V$NFKB_Q6_01

1.73

0.000

0.132

GO Biological Process

INFLAMMATORY_RESPONSE

1.72

0.000

0.141

BioCarta pathway

BIOCARTA_IL1R_PATHWAY

1.72

0.009

0.138

BioCarta pathway

BIOCARTA_CD40_PATHWAY

1.72

0.007

0.138

Reactome pathway

REACTOME_INTERFERON_GAMMA_SIGNALING

1.71

0.003

0.135

KEGG pathway

KEGG_ARRHYTHMOGENIC_RIGHT_VENTRICULAR_CARDIOMYOPATHY_ARVC

1.71

0.000

0.143

GO Cellular Component

NUCLEAR_CHROMOSOME

1.70

0.007

0.151

GO Biological Process

LEUKOCYTE_DIFFERENTIATION

1.70

0.002

0.147

GO Biological Process

RESPONSE_TO_BIOTIC_STIMULUS

1.69

0.000

0.153

GO Biological Process

IMMUNE_SYSTEM_DEVELOPMENT

1.69

0.004

0.154

GO Biological Process

IMMUNE_EFFECTOR_PROCESS

1.68

0.009

0.157

GO Biological Process

CHROMATIN_MODIFICATION

1.68

0.004

0.160

BioCarta pathway

BIOCARTA_TID_PATHWAY

1.68

0.013

0.159

GO Molecular Function

CHLORIDE_CHANNEL_ACTIVITY

1.66

0.007

0.175

GO Molecular Function

ANION_CHANNEL_ACTIVITY

1.66

0.011

0.178

Reactome pathway

REACTOME_PRE_NOTCH_TRANSCRIPTION_AND_TRANSLATION

1.66

0.016

0.177

GO Biological Process

AMINO_SUGAR_METABOLIC_PROCESS

1.65

0.007

0.182

GO Biological Process

REGULATION_OF_MYELOID_CELL_DIFFERENTIATION

1.64

0.010

0.204

KEGG pathway

KEGG_DILATED_CARDIOMYOPATHY

1.63

0.000

0.202

TF motif

V$NFKAPPAB_01

1.63

0.000

0.202

GO Biological Process

HISTONE_MODIFICATION

1.63

0.020

0.201

Reactome pathway

REACTOME_DNA_STRAND_ELONGATION

1.63

0.020

0.203

GO Biological Process

HEMOPOIETIC_OR_LYMPHOID_ORGAN_DEVELOPMENT

1.63

0.000

0.203

GO Biological Process

HEMOPOIESIS

1.62

0.000

0.204

GO Biological Process

COVALENT_CHROMATIN_MODIFICATION

1.62

0.022

0.201

BioCarta pathway

BIOCARTA_NTHI_PATHWAY

1.62

0.021

0.209

Reactome pathway

REACTOME_TRAF6_MEDIATED_NFKB_ACTIVATION

1.61

0.020

0.212

GO Biological Process

ESTABLISHMENT_AND_OR_MAINTENANCE_OF_CHROMATIN_ARCHITECTURE

1.61

0.007

0.213

GO Biological Process

DETECTION_OF_EXTERNAL_STIMULUS

1.61

0.025

0.210

GO Cellular Component

EXTRACELLULAR_SPACE

1.60

0.000

0.229

GO Biological Process

RESPONSE_TO_BACTERIUM

1.59

0.033

0.234

Reactome pathway

REACTOME_HEPARAN_SULFATE_HEPARIN_HS_GAG_METABOLISM

1.59

0.014

0.233

GO Molecular Function

SYMPORTER_ACTIVITY

1.59

0.020

0.238

TF motif

V$CREL_01

1.58

0.000

0.239

GO Biological Process

RESPONSE_TO_UV

1.58

0.025

0.237

BioCarta pathway

BIOCARTA_STRESS_PATHWAY

1.58

0.019

0.234

KEGG pathway

KEGG_ALLOGRAFT_REJECTION

1.58

0.026

0.246

GO Biological Process

MORPHOGENESIS_OF_AN_EPITHELIUM

1.58

0.029

0.242

  1. The differential activity of biologic systems within the phase:infection interaction effected genes was evaluated by GSEA. Seventy gene sets were identified as significantly (FDR q < 0.25) coordinately up-regulated to a greater degree (or down-regulated to a lesser degree) during infection in diestrus phase than in estrus phase. Gene sets are ranked in descending order by Normalized Enrichment score, and are labeled according to the MSigDB sub-collection to which they belong