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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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