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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