Table 2.
Gene set enrichment pathway analysis utilized by Enrichr for differential gene expression, coexpression, and transcriptomic variants is based on preoperative RNA-Seq data . The 161 significantly differentially expressed transcripts identified by DESeq2 and 872 WGCNA transcripts have been applied to the pathway enrichment analysis of Enrichr for the WikiPathways and BioCarta database. The obtained pathways are significantly enriched according to the adjusted p-value < 0.05
| Type of data analysis | Database | Pathway Term | p-value | Adjusted p-value |
|---|---|---|---|---|
| Differential expression | BioCarta | Ras Signaling Pathway_Homo sapiens_h_rasPathway | 0,0004127 | 0,0235251 |
| AKT Signaling Pathway_Homo sapiens_h_aktPathway | 0,0076997 | 0,1097214 | ||
| Cyclin E Destruction Pathway_Homo sapiens_h_fbw7Pathway | 0,0018925 | 0,0447290 | ||
| E2F1 Destruction Pathway_Homo sapiens_h_skp2e2fPathway | 0,0023542 | 0,0447290 | ||
| Control of Gene Expression by Vitamin D Receptor_Homo sapiens_h_vdrPathway | 0,0169139 | 0,1722122 | ||
| Beta-arrestins in GPCR Desensitization_Homo sapiens_h_bArrestinPathway | 0,0181276 | 0,1722122 | ||
| WikiPathways | Hematopoietic Stem Cell Differentiation_Homo sapiens_WP2849 | 0,0050742 | 0,2572584 | |
| Translation Factors_Homo sapiens_WP107 | 0,0063783 | 0,2572584 | ||
| AMPK Signaling_Homo sapiens_WP1403 | 0,0145744 | 0,4408766 | ||
| RalA downstream regulated genes_Homo sapiens_WP2290 | 0,0034194 | 0,2572584 | ||
| EGFR1 Signaling Pathway_Mus musculus_WP572 | 0,0384020 | 0,4723207 | ||
| IL-6 signaling Pathway_Mus musculus_WP387 | 0,0353539 | 0,4723207 | ||
| Androgen receptor signaling pathway_Homo sapiens_WP138 | 0,0284065 | 0,4723207 | ||
| Striated Muscle Contraction_Mus musculus_WP216 | 0,0369516 | 0,4723207 | ||
| Striated Muscle Contraction_Homo sapiens_WP383 | 0,0321361 | 0,4723207 | ||
| Coexpression | BioCarta | EGF Signaling Pathway_Homo sapiens_h_egfPathway | 0,0001867 | 0,0148901 |
| PDGF Signaling Pathway_Homo sapiens_h_pdgfPathway | 0,0004153 | 0,0148901 | ||
| Control of Gene Expression by Vitamin D Receptor_Homo sapiens_h_vdrPathway | 0,0004653 | 0,0148901 | ||
| IL 6 signaling pathway_Homo sapiens_h_il6Pathway | 0,0023696 | 0,0440702 | ||
| Cell to Cell Adhesion Signaling_Homo sapiens_h_cell2cellPathway | 0,0020125 | 0,0440702 | ||
| Eukaryotic protein translation_Homo sapiens_h_eifPathway | 0,0027544 | 0,0440702 | ||
| T Cell Receptor Signaling Pathway_Homo sapiens_h_tcrPathway | 0,0037212 | 0,0486744 | ||
| Map Kinase Inactivation of SMRT Corepressor_Homo sapiens_h_egfr_smrtePathway | 0,0040712 | 0,0486744 | ||
| Internal Ribosome entry pathway_Homo sapiens_h_iresPathway | 0,0045632 | 0,0486744 | ||
| TPO Signaling Pathway_Homo sapiens_h_TPOPathway | 0,0080521 | 0,0515331 | ||
| Inhibition of Cellular Proliferation by Gleevec_Homo sapiens_h_gleevecpathway | 0,0067889 | 0,0515331 | ||
| Erk1/Erk2 Mapk Signaling pathway_Homo sapiens_h_erkPathway | 0,0067889 | 0,0515331 | ||
| Sprouty regulation of tyrosine kinase signals_Homo sapiens_h_spryPathway | 0,0056252 | 0,0515331 | ||
| How Progesterone Initiates the Oocyte Maturation_Homo sapiens_h_mPRPathway | 0,0074082 | 0,0515331 | ||
| mTOR Signaling Pathway_Homo sapiens_h_mTORPathway | 0,0080521 | 0,0515331 | ||
| WikiPathways | Kit Receptor Signaling Pathway_Mus musculus_WP407 | 0,0000385 | 0,0056566 | |
| mRNA processing_Mus musculus_WP310 | 0,0000874 | 0,0064241 | ||
| Interferon type I signaling pathways_Homo sapiens_WP585 | 0,0002457 | 0,0101753 | ||
| EGF/EGFR Signaling Pathway_Homo sapiens_WP437 | 0,0003291 | 0,0101753 | ||
| EPO Receptor Signaling_Homo sapiens_WP581 | 0,0004153 | 0,0101753 | ||
| EPO Receptor Signaling_Mus musculus_WP1249 | 0,0004153 | 0,0101753 | ||
| mRNA Processing_Homo sapiens_WP411 | 0,0007745 | 0,0162654 | ||
| PDGF Pathway_Homo sapiens_WP2526 | 0,0013840 | 0,0254306 | ||
| IL-6 signaling pathway_Homo sapiens_WP364 | 0,0018385 | 0,0270260 | ||
| IL-7 Signaling Pathway_Mus musculus_WP297 | 0,0018385 | 0,0270260 | ||
| Translation Factors_Mus musculus_WP307 | 0,0022338 | 0,0298523 | ||
| IL-3 Signaling Pathway_Homo sapiens_WP286 | 0,0026782 | 0,0325360 | ||
| EGFR1 Signaling Pathway_Mus musculus_WP572 | 0,0028773 | 0,0325360 | ||
| SNP-Responder | BioCarta | Calcium Signaling by HBx of Hepatitis B virus_Homo sapiens_h_HBxPathway | 0,0025401 | 0,0379514 |
| T Cell Receptor Signaling Pathway_Homo sapiens_h_tcrPathway | 0,0027108 | 0,0379514 | ||
| IL 4 signaling pathway_Homo sapiens_h_il4Pathway | 0,0025401 | 0,0379514 | ||
| Repression of Pain Sensation by the Transcriptional Regulator DREAM_Homo sapiens_h_dreampathway | 0,0025401 | 0,0379514 | ||
| Nuclear receptors coordinate the activities of chromatin remodeling complexes and coactivators to facilitate initiation of transcription in carcinoma cells_Homo sapiens_h_rarrxrPathway | 0,0025401 | 0,0379514 | ||
| WikiPathways | mRNA Processing_Homo sapiens_WP411 | 0,0000037 | 0,0005582 | |
| Diurnally Regulated Genes with Circadian Orthologs_Homo sapiens_WP410 | 0,0001005 | 0,0037941 | ||
| Diurnally Regulated Genes with Circadian Orthologs_Mus musculus_WP1268 | 0,0001005 | 0,0037941 | ||
| Exercise-induced Circadian Regulation_Mus musculus_WP544 | 0,0001005 | 0,0037941 | ||
| mRNA processing_Mus musculus_WP310 | 0,0001861 | 0,0056192 | ||
| IL-2 Signaling Pathway_Homo sapiens_WP49 | 0,0012438 | 0,0268307 | ||
| Cytoplasmic Ribosomal Proteins_Homo sapiens_WP477 | 0,0010767 | 0,0268307 | ||
| IL-4 Signaling Pathway_Homo sapiens_WP395 | 0,0025723 | 0,0409333 | ||
| RANKL/RANK Signaling Pathway_Homo sapiens_WP2018 | 0,0027108 | 0,0409333 | ||
| Apoptosis-related network due to altered Notch3 in ovarian cancer_Homo sapiens_WP2864 | 0,0024383 | 0,0409333 | ||
| SNP-Non-responder | BioCarta | Mechanism of Protein Import into the Nucleus_Homo sapiens_h_npcPathway | 0,0017807 | 0,1887530 |
| Thrombin signaling and protease-activated receptors_Homo sapiens_h_Par1Pathway | 0,0187440 | 0,2862846 | ||
| Role of MEF2D in T-cell Apoptosis_Homo sapiens_h_mef2dPathway | 0,0248418 | 0,2862846 | ||
| ADP-Ribosylation Factor_Homo sapiens_h_arapPathway | 0,0227045 | 0,2862846 | ||
| Spliceosomal Assembly_Homo sapiens_h_smPathway | 0,0114323 | 0,2862846 | ||
| Cycling of Ran in nucleocytoplasmic transport_Homo sapiens_h_ranPathway | 0,0144950 | 0,2862846 | ||
| Role of Ran in mitotic spindle regulation_Homo sapiens_h_ranMSpathway | 0,0215374 | 0,2862846 | ||
| Erythropoietin mediated neuroprotection through NF-kB_Homo sapiens_h_eponfkbPathway | 0,0297088 | 0,2862846 | ||
| WikiPathways | Proteasome Degradation_Homo sapiens_WP183 | 0,0000001 | 0,0000161 | |
| Allograft Rejection_Homo sapiens_WP2328 | 0,0000055 | 0,0007073 | ||
| Proteasome Degradation_Mus musculus_WP519 | 0,0000215 | 0,0018437 | ||
| G13 Signaling Pathway_Mus musculus_WP298 | 0,0007868 | 0,0505532 |