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Table 7 List of the genesets of the C2.KEGG category detected with a highly significant threshold (0.01) by the other methods

From: Functional Analysis: Evaluation of Response Intensities - Tailoring ANOVA for Lists of Expression Subsets

 

Faeri.

fixed.null

Faeri.

fixed.perms

GSA.

mean

GSA.

absmean

GSA.

maxmean

Globaltest.

symptoti

Globaltest.

gamma

Globaltest.

permutations

Gsea.

pval

Gsea.

fdr

Samgs.

pval

Samgs.

qval

Hsa00010_glycolysis_and_neoglucogenesis

0.64

1.8E-03

0.96

0.95

0.98

0.020

7.8E-03

0.1

0.11

0.17

0.1

0.08

Hsa00030_pentose_phosphate_pathway

0.41

8.4E-03

0.95

0.9

0.97

0.024

8.8E-03

0.1

0.23

0.28

0.1

0.08

Hsa00052_galactose_metabolism

0.73

0.08

0.95

0.77

0.97

0.018

8.3E-03

0.1

0.11

0.13

0.1

0.08

Hsa00053_ascorbate_and_aldarate_metabolism

0.97

0.18

0.0E+00

0.72

0.06

0.16

0.16

0.3

0.11

0.42

0.19

0.08

Hsa00071_fatty_acid_metabolism

0.71

0.15

0.0E+00

0.52

0.045

0.2

0.18

0.5

0.11

0.3

0.49

0.08

Hsa00100_biosynthesis_of_steriods

0.94

4.0E-04

0.15

0.75

0.0E+00

0.14

0.1

0.3

0.11

0.32

0.1

0.08

Hsa00272_cysteine_metabolism

0.94

0.25

0.34

0.62

0.1

0.028

6.7E-03

0.1

0.21

0.46

0.19

0.08

Hsa00340_histidine_metabolism

1

0.17

0.0E+00

0.36

0.11

0.35

0.41

0.5

0.11

0.21

0.59

0.9

Hsa00500_starch_and_sucrose_metabolism

1

0.08

0.95

0.6

0.97

0.020

6.7E-03

0.1

0.11

0.18

0.1

0.08

Hsa00512_o_glycan_biosynthesis

0.2

0.22

0.0E+00

0.44

0.0E+00

0.36

0.42

0.5

0.64

0.71

0.1

0.08

Hsa00521_streptomycin_biosynthesis

0.94

0.1

0.95

0.96

0.97

0.016

8.7E-03

0.1

0.11

0.17

0.1

0.08

Hsa00640_propanoate_metabolism

0.92

0.06

0.15

0.6

0.0E+00

0.1

0.07

0.3

0.11

0.31

0.19

0.08

Hsa00720_reductive_carboxylate_pathway

1

0.031

0.1

0.75

0.0E+00

0.7

0.034

0.1

0.11

0.3

0.1

0.08

Hsa04664_fc_epsilon_ri_signaling_pathway

0.97

0.039

0.91

0.55

0.97

0.032

6.9E-03

0.1

0.11

0.25

0.1

0.08

Hsa0521_renal_cell_carcinoma

7.1E-03

0.017

0.91

0.55

0.97

0.036

9.9E-03

0.1

0.12

0.24

0.1

0.08

  1. For each geneset, the p-values are given for each method we used.
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BMC Bioinformatics

ISSN: 1471-2105

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