Table 2 Significant categories from the GSEA for each transcript clusters performed using DAVID[19, 20]
From: Transcriptome profiling of mice testes following low dose irradiation
Cluster | Category | Term | Count | % | p-value | Fold enrichment | Bonferroni p-value |
|---|---|---|---|---|---|---|---|
1: Spermatogonia | BP | mRNA processing | 11 | 11.83 | 6.12E-07 | 8.22 | 3.11E-04 |
mRNA metabolic process | 11 | 11.83 | 2.46E-06 | 7.05 | 0.001 | ||
RNA splicing | 9 | 9.68 | 6.05E-06 | 8,87 | 0.003 | ||
CC | Ribonucleoprotein complex | 19 | 20.43 | 4.15E-12 | 8.28 | 6.56E-10 | |
Macromolecular complex | 34 | 36.56 | 5.83E-09 | 2.75 | 9.21E-07 | ||
Intracellular organelle | 60 | 64.52 | 2.24E-08 | 1.54 | 3.54E-06 | ||
Organelle | 60 | 64.52 | 2.32E-08 | 1.54 | 3.67E-06 | ||
Intracellular part | 64 | 68.82 | 4.10E-08 | 1.41 | 6.48E-06 | ||
Intracellular | 64 | 68.82 | 2.70E-07 | 1.36 | 4.26E-05 | ||
Intracellular organelle part | 35 | 37.63 | 5.02E-07 | 2.25 | 7.93E-05 | ||
Organelle part | 35 | 37.63 | 5.95E-07 | 2.24 | 9.40E-05 | ||
Spliceosome | 8 | 8.60 | 2.23E-06 | 12.97 | 3.53E-04 | ||
Nucleus | 38 | 40.86 | 1.60E-05 | 1.85 | 0.003 | ||
Intracellular membrane-bounded organelle | 51 | 54.84 | 4.71E-05 | 1.47 | 0.007 | ||
Membrane-bounded organelle | 51 | 54.84 | 4.90E-05 | 1.47 | 0.008 | ||
MF | RNA binding | 21 | 22.58 | 2.81E-12 | 7.11 | 4.35E-10 | |
Nucleic acid binding | 31 | 33.33 | 1.36E-06 | 2.36 | 2.11E-04 | ||
2: Spermatocytes | BP | Sexual reproduction | 18 | 12.41 | 1.02E-09 | 6.70 | 7.80E-07 |
Gamete generation | 16 | 11.03 | 7.42E-09 | 6.94 | 5.67E-06 | ||
Male gamete generation | 14 | 9.66 | 2.03E-08 | 7.89 | 1.55E-05 | ||
Spermatogenesis | 14 | 9.66 | 2.03E-08 | 7.89 | 1.55E-05 | ||
Multicellular organism reproduction | 16 | 11.03 | 1.22E-07 | 5.62 | 9.34E-05 | ||
Reproductive process in a multicellular organism | 16 | 11.03 | 1.22E-07 | 5.62 | 9.34E-05 | ||
Reproductive process | 18 | 12.41 | 1.01E-06 | 4.17 | 7.72E-04 | ||
Reproduction | 18 | 12.41 | 1.11E-06 | 4.14 | 8.44E-04 | ||
Cell cycle process | 14 | 9.66 | 2.88E-06 | 5.12 | 0.002 | ||
CC | Intracellular organelle part | 45 | 31.03 | 1.01E-06 | 2.03 | 2.04E-04 | |
Macromolecular complex | 39 | 26.90 | 1.16E-06 | 2.21 | 2.36E-04 | ||
Organelle part | 45 | 31.03 | 1.22E-06 | 2.02 | 2.48E-04 | ||
Intracellular part | 90 | 62.09 | 1.67E-06 | 1.35 | 3.39E-04 | ||
Intracellular membrane-bounded organelle | 74 | 51.03 | 6.04E-06 | 1.47 | 0.001 | ||
Membrane-bounded organelle | 74 | 51.03 | 6.04E-06 | 1.47 | 0.001 | ||
Intracellular organelle | 80 | 55.17 | 6.71E-06 | 1.41 | 0.001 | ||
Organelle | 80 | 55.17 | 6.87E-06 | 1.41 | 0.001 | ||
3: Early spermatids | BP | Sexual reproduction | 19 | 9.60 | 2.17E-10 | 6.69 | 1.19E-07 |
Male gamete generation | 13 | 6.57 | 2.33E-07 | 7.03 | 1.28E-04 | ||
Spermatogenesis | 13 | 6.57 | 2.33E-07 | 7.03 | 1.28E-04 | ||
Reproductive process | 19 | 9.60 | 3.10E-07 | 4.21 | 1.70E-04 | ||
Reproduction | 19 | 9.60 | 3.51E-07 | 4.17 | 1.93E-04 | ||
Gamete generation | 14 | 7.07 | 5.99E-07 | 5.81 | 3.29E-04 | ||
Multicellular organism reproduction | 14 | 7.07 | 6.43E-06 | 4.69 | 0.004 | ||
Reproductive process in a multicellular organism | 14 | 7.07 | 6.43E-06 | 4.69 | 0.004 | ||
CC | Acrosomal vesicle | 10 | 5.05 | 1.06E-10 | 25.52 | 1.76E-08 | |
Secretory granule | 10 | 5.05 | 1.11E-06 | 9.26 | 1.84E-04 | ||
4: Late spermatids | BP | Sexual reproduction | 16 | 7.24 | 4.98E-08 | 6.01 | 2.95E-05 |
Spermatogenesis | 12 | 5.43 | 1.27E-06 | 6.83 | 7.51E-04 | ||
Male gamete generation | 12 | 5.43 | 1.27E-06 | 6.83 | 7.51E-04 | ||
Gamete generation | 13 | 5.88 | 2.51E-06 | 5.70 | 0.001 | ||
Reproductive process in a multicellular organism | 14 | 6.33 | 3.97E-06 | 4.97 | 0.002 | ||
Multicellular organism reproduction | 14 | 6.33 | 3.97E-06 | 4.97 | 0.002 | ||
CC | Cytoplasm | 73 | 33.03 | 1.65E-05 | 1.49 | 0.002 | |
5: Somatic cells | BP | Oxidation reduction | 28 | 15.56 | 2.32E-09 | 3.87 | 3.34E-06 |
Lipid metabolic process | 28 | 15.56 | 4.93E-09 | 3.74 | 7.10E-06 | ||
Response to oxidative stress | 10 | 5.56 | 3.62E-07 | 10.68 | 5.22E-04 | ||
Lipid biosynthetic process | 16 | 8.89 | 4.00E-07 | 5.21 | 5.76E-04 | ||
Cellular ketone metabolic process | 20 | 11.11 | 1.23E-06 | 3.79 | 0.002 | ||
Oxoacid metabolic process | 19 | 10.56 | 3.61E-06 | 3.69 | 0.005 | ||
Carboxylic acid metabolic process | 19 | 10.56 | 3.61E-06 | 3.69 | 0.005 | ||
Organic acid metabolic process | 19 | 10.56 | 3.71E-06 | 3.68 | 0.005 | ||
Cellular lipid metabolic process | 19 | 10.56 | 3.93E-06 | 3.66 | 0.006 | ||
Response to hydrogen peroxide | 6 | 3.33 | 4.71E-06 | 23.23 | 0.007 | ||
CC | Cytoplasm | 114 | 63.33 | 4.81E-13 | 1.68 | 1.11E-10 | |
Cytoplasmic part | 85 | 47.22 | 1.37E-11 | 1.94 | 3.14E-09 | ||
Mitochondrion | 37 | 20.56 | 6.64E-08 | 2.67 | 1.53E-05 | ||
Intracellular part | 128 | 71.11 | 5.25E-06 | 1.27 | 0.001 | ||
Intracellular | 130 | 72.22 | 2.52E-05 | 1.23 | 0.006 | ||
MF | Oxidoreductase activity | 29 | 16.11 | 2.67E-10 | 4.12 | 1.02E-07 | |
Oxidoreductase activity, acting on CH-OH group of donors | 13 | 7.22 | 2.96E-09 | 10.68 | 1.13E-06 | ||
Oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor | 6.67 | 6.67 | 1.19E-08 | 10.91 | 4.56E-06 |