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Table 4 GSEA4GWAS analysis of the additive OS model. Gene Ontology Biological Process and Canonical Pathways terms with a BH-adjusted P-value < 0.25 are shown

From: The association of germline variants with chronic lymphocytic leukemia outcome suggests the implication of novel genes and pathways in clinical evolution

Pathway/Gene set name P-value FDR Significant genes/Selected genes/All genes
GSEA4GWAS Biological Process results for the Additive OS model
 INDUCTION OF APOPTOSIS BY EXTRACELLULAR SIGNALS < 0.001 0.01 9/21/27
 MITOSIS < 0.001 0.02 23/68/82
 M PHASE < 0.001 0.02 31/96/114
 M PHASE OF MITOTIC CELL CYCLE < 0.001 0.04 23/70/85
 NEGATIVE REGULATION OF DEVELOPMENTAL PROCESS 0.001 0.05 36/148/197
 ANTI APOPTOSIS < 0.001 0.05 20/83/118
 CHROMOSOME SEGREGATION 0.003 0.1 10/29/32
 CELL CYCLE PHASE 0.001 0.13 38/144/170
 CELL CYCLE PROCESS < 0.001 0.19 42/160/193
 REGULATION OF MITOSIS 0.004 0.19 11/36/41
 VASCULATURE DEVELOPMENT 0.007 0.24 14/43/55
 SKELETAL DEVELOPMENT 0.011 0.25 23/80/103
 GAMETE GENERATION 0.011 0.25 18/76/114
 NEGATIVE REGULATION OF APOPTOSIS 0.008 0.25 21/112/150
 NEGATIVE REGULATION OF PROGRAMMED CELL DEATH 0.008 0.25 21/112/151
GSEA4GWAS Cannonical Pathways results for the Additive OS model
 PENTOSE PHOSPHATE PATHWAY < 0.001 1.67E-03 8/19/25
 GLUCONEOGENESIS < 0.001 2.00E-03 18/47/53
 GLYCOLYSIS < 0.001 2.00E-03 18/47/53
 HSA00030 PENTOSE PHOSPHATE PATHWAY < 0.001 0.01 8/21/26
 ST GA13 PATHWAY < 0.001 0.02 11/29/37
 NO1PATHWAY < 0.001 0.03 11/26/31
 HSA04210 APOPTOSIS 0.001 0.03 19/68/84
 HSA00010 GLYCOLYSIS AND GLUCONEOGENESIS 0.001 0.03 17/58/64
 ST TUMOR NECROSIS FACTOR PATHWAY < 0.001 0.04 7/20/29
 OVARIAN INFERTILITY GENES 0.001 0.04 8/21/25
 BILE ACID BIOSYNTHESIS 0.002 0.04 9/23/27
 KERATINOCYTEPATHWAY 0.001 0.04 12/37/46
 GLYCINE SERINE AND THREONINE METABOLISM 0.006 0.05 9/28/37
 BREAST CANCER ESTROGEN SIGNALING 0.001 0.06 21/78/101
 GLYCEROLIPID METABOLISM 0.008 0.09 13/36/45
 NOS1PATHWAY 0.01 0.1 7/20/22
 HSA00120 BILE ACID BIOSYNTHESIS 0.003 0.11 11/36/38
 HSA04330 NOTCH SIGNALING PATHWAY 0.011 0.11 10/35/47
 FRUCTOSE AND MANNOSE METABOLISM 0.01 0.11 7/21/25
 EGFPATHWAY 0.009 0.11 8/24/27
 HSA05218 MELANOMA 0.01 0.11 13/58/71
 ST JNK MAPK PATHWAY 0.011 0.12 10/33/40
 PDGFPATHWAY 0.011 0.12 8/24/27
 TYROSINE METABOLISM 0.015 0.12 8/24/32
 HSA05223 NON SMALL CELL LUNG CANCER 0.009 0.12 13/47/54
 HSA00760 NICOTINATE AND NICOTINAMIDE METABOLISM 0.019 0.14 7/20/24
 HSA00051 FRUCTOSE AND MANNOSE METABOLISM 0.013 0.14 10/35/42
 BUTANOATE METABOLISM 0.017 0.14 7/26/29
 HSA00260 GLYCINE SERINE AND THREONINE METABOLISM 0.018 0.15 8/36/45
 HSA00561 GLYCEROLIPID METABOLISM 0.022 0.19 15/49/58
 STRIATED MUSCLE CONTRACTION 0.023 0.2 11/31/39
 PPARAPATHWAY 0.023 0.2 11/43/57
 HSA04510 FOCAL ADHESION 0.015 0.2 53/171/200
 G1PATHWAY 0.04 0.21 4/22/28
 HSA05222 SMALL CELL LUNG CANCER 0.024 0.21 22/78/87
 HSA05010 ALZHEIMERS DISEASE 0.029 0.21 7/23/28
 HIVNEFPATHWAY 0.029 0.22 13/46/58
 HSA04662 B CELL RECEPTOR SIGNALING PATHWAY 0.041 0.23 15/57/64
 HSA05214 GLIOMA 0.035 0.24 14/56/64
 NFATPATHWAY 0.039 0.24 11/46/53