Table 4.
Enriched Biological Themes Identified in DAVID
| Category | Entry | Enriched KEGG pathways | Fold enrichment | p value | Associated genes |
|---|---|---|---|---|---|
| Upregulated | |||||
| IVF | hsa04142 | Lysosome | 4.41 | 1.25E-08 | CTSK, CTSA, CTSZ, HEXA, HEXB |
| hsa04510 | Focal adhesion | 2.68 | 3.39E-05 | ACTB, GLB1, GLA, SGSH, ABCB9 | |
| hsa04910 | Insulin signaling pathway | 2.95 | 1.65E-04 | CBLB, MKNK2, FASN, FBP1, INSR | |
| SCNT (no HDACi) | hsa00260 | Glycine, serine and threonine metabolism | 6.37 | 2.35E-02 | PSAT1, CBS, PHGDH, PSPH |
| hsa04115 | p53 signaling pathway | 3.63 | 4.68E-02 | FAS, CCND1, SERPINE1, SESN2,ZMAT3 | |
| Scriptaid | hsa04142 | Lysosome | 5.27 | 2.2E-07 | ASAH1, SGSH, ARSA, CTSK, HEXA, HEXB, LGMN |
| hsa00100 | Steroid biosynthesis | 15.86 | 2.6E-06 | DHCR24, CYP51A1P1,EBP, FDFT1, SQLE | |
| hsa00900 | Terpenoid backbone biosynthesis | 12.84 | 0.00046 | HMGCR, HMGCS1, ACAT1, IDI1, MVK | |
| SAHA | hsa04142 | Lysosome | 5.23 | 1.82E-10 | CTSK, CTSA, HEXA,HEXB, LGMN |
| hsa00100 | Steroid biosynthesis | 14.09 | 5.98E-08 | DHCR24, CYP51A1, EBP, FDFT1, HSD17B7 | |
| hsa00531 | Glycosaminoglycan degradation | 10.14 | 6.79E-06 | DHCR24, CYP51A1, EBP, FDFT1, HSD17B7 | |
| ISAHA | hsa04142 | Lysosome | 5.24 | 8.7E-08 | ATP6V0D1, ASAH1, CTSA, CTSH, CTSK |
| hsa00100 | Steroid biosynthesis | 16.97 | 1.6E-07 | DHCR24, CYP51A1, EBP, FDFT1, LSS | |
| hsa00531 | Glycosaminoglycan degradation | 10.30 | 0.00021 | SGSH, GLB1, IDS, HEXA, HEXB | |
| Downregulated | |||||
| IVF | hsa05322 | Systemic lupus erythematosus | 3.67 | 0.04465 | H2AFX, HIST1H2AG, HIST1H4K, HLA-DPA1, SNRPD1 |
| SCNT (No HDACi) | No KEGG pathways identified | ||||
| Scriptaid | No KEGG pathwaysi | ||||
| ISAHA | No KEGG pathways identified | ||||
| SAHA | hsa05221 | Acute myeloid leukemia | 6.54 | 0.00649 | BAD, RUNX1, RUNX1T1, KIT, MYC |
DAVID, Database for Annotation, Visualization, and Integrated Discovery; KEGG, Kyoto Encyclopedia of Genes and Genomes; IVF, in vitro fertilization; SCNT, somatic cell nuclear transfer; HDACi, histone deacetylase inhibitor; SAHA, suberoylanilide hydroxamic acid; ISAHA, 4-iodo-suberoylanilide hydroxamic acid.