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Table 3 Gene set enrichment analysis (GSEA) on the global genes

From: Comparison of human bone marrow stromal cells cultured in human platelet growth factors and fetal bovine serum

NAME

SIZE

ES

NES

FDR

Enriched gene sets in HPGF-C18 group (FDR < 0.25)

 HALLMARK_CHOLESTEROL_HOMEOSTASIS

24

0.87

2.21

0.00

 HALLMARK_MTORC1_SIGNALING

59

0.60

1.99

0.02

 HALLMARK_ANDROGEN_RESPONSE

20

0.56

1.87

0.02

 KEGG_NEUROTROPHIN_SIGNALING_PATHWAY

26

0.53

1.86

0.02

 HALLMARK_MITOTIC_SPINDLE

49

0.71

1.88

0.02

 RESPONSE_TO_DNA_DAMAGE_STIMULUS

38

0.69

1.89

0.02

 KEGG_P53_SIGNALING_PATHWAY

20

0.69

1.89

0.02

 LIPID_BIOSYNTHETIC_PROCESS

32

0.52

1.90

0.03

 NUCLEOCYTOPLASMIC_TRANSPORT

20

0.69

1.83

0.03

 KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION

25

0.72

1.91

0.03

 HALLMARK_INTERFERON_ALPHA_RESPONSE

31

0.59

1.81

0.03

 M_PHASE

38

0.72

1.74

0.04

 DNA_METABOLIC_PROCESS

65

0.59

1.75

0.04

 CELL_CYCLE_PROCESS

62

0.69

1.75

0.04

 HALLMARK_ADIPOGENESIS

39

0.47

1.73

0.04

 DNA_REPAIR

26

0.72

1.75

0.04

 CELL_CYCLE_GO_0007049

95

0.57

1.77

0.04

 HALLMARK_APOPTOSIS

57

0.44

1.73

0.04

 DNA_RECOMBINATION

15

0.80

1.75

0.04

 CELL_CYCLE_PHASE

56

0.67

1.76

0.04

 HALLMARK_INTERFERON_GAMMA_RESPONSE

63

0.48

1.77

0.05

 CHROMOSOME_ORGANIZATION_AND_BIOGENESIS

24

0.63

1.78

0.05

 NUCLEAR_TRANSPORT

21

0.66

1.77

0.05

 RESPONSE_TO_ENDOGENOUS_STIMULUS

50

0.55

1.71

0.05

 KEGG_CELL_CYCLE

45

0.73

1.70

0.05

 MITOTIC_CELL_CYCLE

50

0.69

1.71

0.05

 BIOCARTA_HIVNEF_PATHWAY

17

0.59

1.70

0.05

 MICROTUBULE_BASED_PROCESS

25

0.62

1.70

0.05

 HALLMARK_DNA_REPAIR

22

0.66

1.69

0.06

 CELL_CYCLE_CHECKPOINT_GO_0000075

20

0.74

1.68

0.06

 ESTABLISHMENT_OF_CELLULAR_LOCALIZATION

71

0.42

1.66

0.07

 KEGG_OOCYTE_MEIOSIS

31

0.56

1.66

0.07

 GAMETE_GENERATION

37

0.47

1.66

0.07

 PROTEIN_TARGETING

22

0.59

1.64

0.07

 ESTABLISHMENT_OF_PROTEIN_LOCALIZATION

40

0.47

1.63

0.07

 KEGG_APOPTOSIS

21

0.53

1.64

0.07

 HALLMARK_G2M_CHECKPOINT

68

0.78

1.64

0.07

 M_PHASE_OF_MITOTIC_CELL_CYCLE

26

0.75

1.64

0.07

 MACROMOLECULE_LOCALIZATION

47

0.47

1.64

0.07

 ORGANELLE_ORGANIZATION_AND_BIOGENESIS

118

0.41

1.62

0.07

 REGULATION_OF_CELL_CYCLE

57

0.53

1.62

0.07

 MITOSIS

26

0.75

1.64

0.07

 CELLULAR_LOCALIZATION

74

0.41

1.61

0.08

 DNA_DEPENDENT_DNA_REPLICATION

15

0.70

1.61

0.08

 PROTEIN_TRANSPORT

35

0.47

1.60

0.08

 CYTOSKELETON_ORGANIZATION_AND_BIOGENESIS

71

0.40

1.58

0.10

 DNA_REPLICATION

26

0.63

1.58

0.10

 KEGG_PEROXISOME

21

0.46

1.57

0.10

 CELL_MIGRATION

26

0.43

1.56

0.11

 HALLMARK_ESTROGEN_RESPONSE_EARLY

63

0.40

1.56

0.11

 PROTEIN_LOCALIZATION

42

0.46

1.56

0.11

 DETECTION_OF_STIMULUS

19

0.55

1.55

0.11

 HALLMARK_IL2_STAT5_SIGNALING

59

0.37

1.54

0.12

 INTRACELLULAR_PROTEIN_TRANSPORT

30

0.49

1.53

0.12

 INTERPHASE

22

0.60

1.53

0.12

 CELL_PROLIFERATION_GO_0008283

185

0.34

1.53

0.12

 HALLMARK_E2F_TARGETS

60

0.72

1.52

0.13

 INTERPHASE_OF_MITOTIC_CELL_CYCLE

19

0.61

1.51

0.13

 SEXUAL_REPRODUCTION

48

0.46

1.51

0.13

 ORGAN_MORPHOGENESIS

54

0.37

1.50

0.14

 ANATOMICAL_STRUCTURE_MORPHOGENESIS

118

0.33

1.50

0.14

 HALLMARK_UV_RESPONSE_UP

49

0.37

1.49

0.15

 KEGG_PYRIMIDINE_METABOLISM

22

0.55

1.48

0.16

 NUCLEOBASENUCLEOSIDENUCLEOTIDE_AND_NUCLEIC_ACID_METABOLIC_PROCESS

263

0.34

1.48

0.16

 RESPONSE_TO_STRESS

140

0.32

1.46

0.17

 TRANSLATION

30

0.42

1.46

0.17

 HALLMARK_SPERMATOGENESIS

47

0.45

1.45

0.18

 ACTIN_CYTOSKELETON_ORGANIZATION_AND_BIOGENESIS

38

0.36

1.45

0.18

 KEGG_BASAL_CELL_CARCINOMA

16

0.47

1.41

0.22

 HALLMARK_TNFA_SIGNALING_VIA_NFKB

69

0.38

1.39

0.24

Enriched gene sets in FBS group (FDR < 0.25)

 HALLMARK_GLYCOLYSIS

54

0.56

1.97

0.02

 ACTIVATION_OF_MAPK_ACTIVITY

15

0.65

1.73

0.14

 POSITIVE_REGULATION_OF_MAP_KINASE_ACTIVITY

17

0.63

1.72

0.14

 KEGG_CELL_ADHESION_MOLECULES_CAMS

48

0.49

1.68

0.15

 KEGG_ECM_RECEPTOR_INTERACTION

33

0.54

1.74

0.15

 KEGG_FOCAL_ADHESION

61

0.43

1.66

0.16

 HALLMARK_HYPOXIA

66

0.51

1.68

0.16

 KEGG_TGF_BETA_SIGNALING_PATHWAY

25

0.55

1.68

0.17

 EXTRACELLULAR_STRUCTURE_ORGANIZATION_AND_BIOGENESIS

16

0.73

1.74

0.18

 FEMALE_PREGNANCY

21

0.59

1.75

0.23

 HALLMARK_EPITHELIAL_MESENCHYMAL_TRANSITION

79

0.51

1.78

0.23

 TRANSMEMBRANE_RECEPTOR_PROTEIN_SERINE_THREONINE_KINASE_SIGNALING_PATHWAY

18

0.54

1.60

0.25

  1. ES enrichment score, NES normalized enrichment score, FDR false discovery rate
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Journal of Translational Medicine

ISSN: 1479-5876

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