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Table 4 Gene set enrichment analysis (GSEA) for enrichment of gene sets/pathways for the up-regulated and down-regulated genes in participants with MI compared to controls

From: Genome-wide transcriptome study using deep RNA sequencing for myocardial infarction and coronary artery calcification

NAME in the Molecular Signatures Database (MSigDB)

SIZE

NES

NOM

p-val

FDR

q-val

BOWIE_RESPONSE_TO_EXTRACELLULAR_MATRIX

17

0.834137

0

0

DAZARD_UV_RESPONSE_CLUSTER_G4

15

0.810541

0

0

BOWIE_RESPONSE_TO_TAMOXIFEN

18

0.800464

0

0

ZHANG_INTERFERON_RESPONSE

22

0.760159

0

5.99E-04

BENNETT_SYSTEMIC_LUPUS_ERYTHEMATOSUS

30

0.730185

0

0.001917

ZHANG_ANTIVIRAL_RESPONSE_TO_RIBAVIRIN_UP

20

0.724651

0

0.002397

CREIGHTON_AKT1_SIGNALING_VIA_MTOR_DN

20

0.687019

0

0.009875

UROSEVIC_RESPONSE_TO_IMIQUIMOD

20

0.687635

0

0.011115

STAMBOLSKY_TARGETS_OF_MUTATED_TP53_DN

38

0.67526

0

0.012077

CHIBA_RESPONSE_TO_TSA_UP

29

0.677011

0

0.012327

DAZARD_UV_RESPONSE_CLUSTER_G24

15

0.680731

0.001965

0.012367

MOSERLE_IFNA_RESPONSE

29

0.670738

0

0.013561

EINAV_INTERFERON_SIGNATURE_IN_CANCER

26

0.662667

0

0.016484

GALE_APL_WITH_FLT3_MUTATED_DN

16

0.652891

0

0.019301

LIANG_SILENCED_BY_METHYLATION_2

32

0.654796

0

0.02017

LIANG_HEMATOPOIESIS_STEM_CELL_NUMBER_QTL

15

0.653422

0.006276

0.020191

JOSEPH_RESPONSE_TO_SODIUM_BUTYRATE_UP

26

0.645603

0

0.021225

REACTOME_TRANSFERRIN_ENDOCYTOSIS_AND_RECYCLING

19

0.646882

0

0.021409

RASHI_NFKB1_TARGETS

18

0.648308

0

0.021688

CAVARD_LIVER_CANCER_MALIGNANT_VS_BENIGN

16

0.639799

0.001927

0.024119

DAUER_STAT3_TARGETS_DN

46

0.63281

0

0.026719

HARRIS_BRAIN_CANCER_PROGENITORS

15

0.633145

0.00404

0.027771

KRASNOSELSKAYA_ILF3_TARGETS_UP

28

0.633243

0

0.029035

RADAEVA_RESPONSE_TO_IFNA1_UP

47

0.626684

0

0.030557

KIM_LRRC3B_TARGETS

28

0.626813

0

0.03178

SUH_COEXPRESSED_WITH_ID1_AND_ID2_UP

16

0.623882

0.005906

0.032143

NOJIMA_SFRP2_TARGETS_DN

18

0.621049

0.002024

0.034003

XU_HGF_TARGETS_INDUCED_BY_AKT1_6HR

16

0.60961

0.008065

0.039922

BROWNE_INTERFERON_RESPONSIVE_GENES

63

0.610055

0

0.040405

REACTOME_INTERFERON_ALPHA_BETA_SIGNALING

46

0.610758

0

0.040506

GRATIAS_RETINOBLASTOMA_16Q24

15

0.611119

0.00813

0.041194

KANG_CISPLATIN_RESISTANCE_UP

16

0.611884

0

0.041448

WELCH_GATA1_TARGETS

18

0.613601

0

0.042096

OUYANG_PROSTATE_CANCER_PROGRESSION_DN

16

0.612352

0.004008

0.042214

REACTOME_INSULIN_RECEPTOR_RECYCLING

17

0.601722

0

0.049199

  1. A total of 3283 gene sets in GSEA C2 category [28] were tested. At FDR < 25% enrichment level, 215 gene sets were significantly up-regulated (out of 1938) and eight gene sets were significantly down-regulated (out of 1345)
  2. NES Normalized enrichment score, NOM p-val Nominal p-value, FDR q-val False discovery rate q-value
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BMC Medical Genomics

ISSN: 1755-8794

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