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. 2011 Sep 1;6(9):e24259. doi: 10.1371/journal.pone.0024259

Table 4. Summarization of the identified pathways related to the level-2 discriminatory genes in the Lung Cancer data set (Part I).

Term Count % p-value Fold Enrichment Bonferroni Benjamini FDR
Adeno-Normal List
hsa05416:Viral myocarditis 10 9.0909 1.17E-07 11.5516 1.17E-05 1.17E-05 1.30E-04
hsa05330:Allograft rejection 8 7.2727 1.60E-07 18.2258 1.60E-05 7.99E-06 1.77E-04
hsa05332:Graft-versus-host disease 8 7.2727 2.86E-07 16.8238 2.86E-05 9.55E-06 3.18E-04
hsa04940:Type I diabetes mellitus 8 7.2727 4.88E-07 15.6221 4.88E-05 1.22E-05 5.42E-04
hsa05320:Autoimmune thyroid disease 8 7.2727 1.93E-06 12.8653 1.93E-04 3.85E-05 0.0021
hsa04612:Antigen processing and presentation 9 8.1818 5.23E-06 8.8933 5.23E-04 8.71E-05 0.0058
hsa05310:Asthma 6 5.4545 2.00E-05 16.9689 0.0020 2.86E-04 0.0222
hsa04514:Cell adhesion molecules (CAMs) 9 8.1818 1.54E-04 5.5920 0.0153 0.0019 0.1711
hsa05322:Systemic lupus erythematosus 8 7.2727 1.58E-04 6.6276 0.0157 0.0018 0.1754
hsa04672:Intestinal immune network for IgA production 6 5.4545 2.68E-04 10.0428 0.0264 0.0027 0.2966
hsa00590:Arachidonic acid metabolism 6 5.4545 5.03E-04 8.7874 0.0490 0.0046 0.5564
hsa04640:Hematopoietic cell lineage 7 6.3636 5.18E-04 6.6757 0.0505 0.0043 0.5731
hsa04142:Lysosome 7 6.3636 0.0026 4.9069 0.2279 0.0197 2.8294
hsa04210:Apoptosis 5 4.5455 0.0199 4.7136 0.8660 0.1338 19.9982
hsa04610:Complement and coagulation cascades 4 3.6364 0.0492 4.7546 0.9936 0.2858 42.8973
Adeno-SQ List
hsa03010:Ribosome 7 14.2857 4.68E-06 14.6121 0.0002 0.0002 0.0042
hsa04512:ECM-receptor interaction 6 12.2449 6.62E-05 12.9719 0.0025 0.0013 0.0598
hsa04510:Focal adhesion 4 8.1633 0.0888 3.6141 0.9708 0.6922 56.8582
Normal-SCLC List
hsa04510:Focal adhesion 3 10.7143 0.0286 9.4869 0.4567 0.4567 20.0947
Normal-COID List
hsa04142:Lysosome 5 3.9683 3.09E-02 4.1001 9.26E-01 9.26E-01 2.85E+01
SCLC-SQ List
hsa03040:Spliceosome 12 12.5000 1.83E-08 9.6857 9.15E-07 9.15E-07 1.76E-05
hsa03030:DNA replication 8 8.3333 3.34E-08 22.6000 1.67E-06 8.36E-07 3.22E-05
hsa04110:Cell cycle 10 10.4167 2.20E-06 8.1360 1.10E-04 3.67E-05 0.0021
hsa03410:Base excision repair 6 6.2500 1.76E-05 17.4343 8.81E-04 2.20E-04 0.0170
hsa00670:One carbon pool by folate 3 3.1250 0.0100 19.0687 0.3955 0.0958 9.2400