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Table 3 Gene sets and pathways associated with LEP gene expression measurements

From: Linear combination test for gene set analysis of a continuous phenotype

Gene set

Size

LCT

LCT2

SAMGS

Global

NADLER_OBESITY_UP

46

0

0.004

0.108

0.098

HSA04920_ADIPOCYTOKINE_SIGNALING_PATHWAY

68

0.003

0.003

0.042

0.032

HSA04140_REGULATION_OF_AUTOPHAGY

26

0.004

0.007

0.003

0.002

HIF1_TARGETS

32

0.006

0.025

0.027

0.03

DORSEY_DOXYCYCLINE_UP

29

0.011

0.063

0.174

0.174

SHIPP_DLBCL_CURED_UP

28

0.013

0.003

0.01

0.02

JNK_UP

24

0.015

0.026

0.083

0.074

PROSTAGLANDIN_SYNTHESIS_REGULATION

28

0.016

0.04

0.165

0.155

CARDIACEGFPATHWAY

16

0.019

0.018

0.02

0.01

CITED1_KO_HET_UP

23

0.022

0.023

0.036

0.031

XU_CBP_DN

32

0.022

0.027

0.06

0.064

CHREBPPATHWAY

16

0.027

0.029

0.029

0.023

OXSTRESS_BREASTCA_UP

24

0.027

0.046

0.044

0.047

AGUIRRE_PANCREAS_CHR17

61

0.029

0.034

0.082

0.06

ST_GAQ_PATHWAY

27

0.031

0.047

0.109

0.083

HSA04340_HEDGEHOG_SIGNALING_PATHWAY

46

0.032

0.038

0.036

0.036

NFATPATHWAY

47

0.034

0.041

0.065

0.053

HYPOXIA_REVIEW

75

0.035

0.055

0.098

0.095

HSA04614_RENIN_ANGIOTENSIN_SYSTEM

16

0.04

0.108

0.087

0.076

CPR_NULL_LIVER_DN

16

0.041

0.047

0.038

0.036

HSA00380_TRYPTOPHAN_METABOLISM

49

0.043

0.055

0.11

0.1

HSA04630_JAK_STAT_SIGNALING_PATHWAY

135

0.045

0.065

0.173

0.167

DIAB_NEPH_UP

58

0.046

0.051

0.196

0.194

TRYPTOPHAN_METABOLISM

57

0.049

0.064

0.089

0.09

INSULIN_SIGNALING

93

0.049

0.068

0.187

0.18

PASSERINI_GROWTH

32

0.049

0.12

0.31

0.319

TNFA_NFKB_DEP_UP

18

0.05

0.07

0.152

0.169

FRUCTOSE_AND_MANNOSE_METABOLISM

24

0.055

0.02

0.039

0.041

ANDROGEN_AND_ESTROGEN_METABOLISM

21

0.058

0.028

0.046

0.042

POMEROY_DESMOPLASIC_VS_CLASSIC_MD_DN

38

0.091

0.048

0.13

0.116

TCA

15

0.101

0.058

0.042

0.037

HSA03050_PROTEASOME

21

0.103

0.113

0.051

0.048

PROTEASOME_DEGRADATION

27

0.122

0.082

0.028

0.029

  1. The p-values from the four GSA methods, LCT, LCT2, SAM-GS and Global Test, are shown.