Table 6 Pathway enrichment of breast cancer co-expressed genes
From: EPIG-Seq: extracting patterns and identifying co-expressed genes from RNA-Seq data
Pattern # | # of Genes | Enriched Pathways (example of co-expressed genes) | p-value | FDR |
|---|---|---|---|---|
1 | 45 | GO:0006260 - DNA replication (PCNA, TOP2A, S100A14) | 1.10E-05 | 1.70E-02 |
2 | 182 | GO:0006886 - Intracellular protein transport (ERBB3, PTMS, SLC25A5, SLC9A3R1, SOX4, STAT1) | 1.1E-06 | 1.8E-03 |
3 | 9 | BST2, C17orf37, CEACAM6, IFI27, IFI6, MX1, OAS3, RAB31, TPX2 | - | - |
4 | 40 | KEGG:03320 - Peroxisome proliferator-activated receptor signaling pathway (TRIM29, PDK4, FOSB, CD36) | 1.0E-04 | 9.1E-02 |
5 | 41 | GO:0010033 - Response to organic substance (ANXA1, CD34, EGR1, FOS, TGFBR2) | 1.3E-04 | 2.0E-01 |
6 | 27 | GO:0006414 - Translation elongation (CD59, ITGB1, ribosomal protein genes) | 2.80E-05 | 3.90E-02 |