Table 3.
Functional analysis (gene set enrichment analysis for biological process terms) of genes that are negatively regulated by NR3C1 in breast cancer.
| Description | Significant Terms | p-Value | Associated Genes | Studies Microarray (n = 10,455), RNAseq (n = 4421) |
|---|---|---|---|---|
| sister chromatid cohesion | GO:0007062 | 1.37 × 10−3 | STAG3L3 | microarray |
| protein K29-linked ubiquitination | GO:0035519 | 1.17 × 10−5 | UBE2S, UBE2T | RNAseq |
| protein K27-linked ubiquitination | GO:0044314 | 1.17 × 10−5 | UBE2S, UBE2T | RNAseq |
| protein K6-linked ubiquitination | GO:0085020 | 2.81 × 10−5 | UBE2S, UBE2T | RNAseq |
| cell division | GO:0051301 | 2.36 × 10−4 | CDCA3, CDT1, SAC3D1, UBE2S | RNAseq |
| protein K11-linked ubiquitination | GO:0070979 | 3.13 × 10−4 | UBE2S, UBE2T | RNAseq |
| protein K63-linked ubiquitination | GO:0070534 | 7.24 × 10−4 | UBE2S, UBE2T | RNAseq |
| FAD biosynthetic process | GO:0006747 | 9.13 × 10−4 | FLAD1 | RNAseq |
| Golgi to transport vesicle transport | GO:0055108 | 9.13 × 10−4 | ARF1 | RNAseq |
| synaptic vesicle budding | GO:0070142 | 9.13 × 10−4 | ARF1 | RNAseq |
| negative regulation of protein localization to kinetochore | GO:1905341 | 9.13 × 10−4 | CDT1 | RNAseq |
| mitotic cleavage furrow ingression | GO:1990386 | 9.13 × 10−4 | ARF1 | RNAseq |
| positive regulation of DNA-dependent DNA replication | GO:2000105 | 9.13 × 10−4 | CDT1 | RNAseq |
| RNA phosphodiester bond hydrolysis, endonucleolytic | GO:0090502 | 1.39 × 10−3 | POP7, RNASEH2A | RNAseq |
| meiotic cell cycle | GO:0051321 | 1.72 × 10−3 | H2AX, PKMYT1 | RNAseq |
| DNA replication preinitiation complex assembly | GO:0071163 | 1.83 × 10−3 | CDT1 | RNAseq |
| response to sorbitol | GO:0072708 | 1.83 × 10−3 | CDT1 | RNAseq |
| lysosomal membrane organization | GO:0097212 | 1.83 × 10−3 | ARF1 | RNAseq |
| positive regulation of sodium ion transmembrane transport | GO:1902307 | 1.83 × 10−3 | ARF1 | RNAseq |
| regulation of DNA replication origin binding | GO:1902595 | 1.83 × 10−3 | CDT1 | RNAseq |
| positive regulation of late endosome to lysosome transport | GO:1902824 | 1.83 × 10−3 | ARF1 | RNAseq |
| regulation of phospholipid metabolic process | GO:1903725 | 1.83 × 10−3 | ARF1 | RNAseq |
| double-strand break repair via homologous recombination | GO:0000724 | 2.20 × 10−3 | H2AX, RECQL4 | RNAseq |
| regulation of chromosome organization | GO:0033044 | 2.74 × 10−3 | CDT1 | RNAseq |
| deactivation of mitotic spindle assembly checkpoint | GO:1902426 | 2.74 × 10−3 | CDT1 | RNAseq |
| DNA replication | GO:0006260 | 3.46 × 10−3 | RECQL4, RNASEH2A | RNAseq |
| DNA replication, removal of RNA primer | GO:0043137 | 3.65 × 10−3 | RNASEH2A | RNAseq |
| dendritic spine organization | GO:0097061 | 3.65 × 10−3 | ARF1 | RNAseq |
| positive regulation of protein localization to kinetochore | GO:1905342 | 3.65 × 10−3 | CDT1 | RNAseq |
| regulation of receptor internalization | GO:0002090 | 4.56 × 10−3 | ARF1 | RNAseq |
| riboflavin metabolic process | GO:0006771 | 4.56 × 10−3 | FLAD1 | RNAseq |
| regulation of nuclear cell cycle DNA replication | GO:0033262 | 4.56 × 10−3 | CDT1 | RNAseq |
| positive regulation of ER to Golgi vesicle-mediated transport | GO:1902953 | 4.56 × 10−3 | ARF1 | RNAseq |
| free ubiquitin chain polymerization | GO:0010994 | 5.47 × 10−3 | UBE2S | RNAseq |
| regulation of DNA-dependent DNA replication initiation | GO:0030174 | 5.47 × 10−3 | CDT1 | RNAseq |
| regulation of Arp2/3 complex-mediated actin nucleation | GO:0034315 | 5.47 × 10−3 | ARF1 | RNAseq |
| kinetochore organization | GO:0051383 | 5.47 × 10−3 | CDT1 | RNAseq |
| mitotic cell cycle | GO:0000278 | 6.22 × 10−3 | CDT1, PKMYT1 | RNAseq |
| telomeric D-loop disassembly | GO:0061820 | 7.29 × 10−3 | RECQL4 | RNAseq |
| protein polyubiquitination | GO:0000209 | 8.93 × 10−3 | UBE2S, UBE2T | RNAseq |
| DNA replication checkpoint signaling | GO:0000076 | 9.10 × 10−3 | CDT1 | RNAseq |
| positive regulation of ubiquitin protein ligase activity | GO:1904668 | 9.10 × 10−3 | UBE2S | RNAseq |