Table 2.
Overrepresented GO terms from functional annotation clustering in DAVID corresponding to those categories of terms with enrichment fold greater than 3.0.
| Contrast | Description of change | GO Term | Enriched gene category | Gene number | P-value | Genes |
|---|---|---|---|---|---|---|
| PvH | Genes down regulated in horned versus polled animals | GOTERM_BP_5 | epidermis development | 18 | 2.10E-12 | COL17A1, KLK5, SPINK5, GJB5, KLK7, IVL, GRHL3, CALML5, KRT5, SPRR3, TCHH, LAMC2, DSP, KRT17, S100A7, LOR, BARX2, KRT10, |
| GOTERM_BP_5 | striated muscle contraction | 8 | 2.40E-07 | MYOM2, SMPX, MYBPC1, MYH7, PGAM2, MYH2, KBTBD10, TTN | ||
| KEGG_PATHWAY | cell communication | 16 | 2.20E-08 | DSC1, KRT40, KRT33A, COL17A1, DSC3, KRT25, GJB5, GJB4, KRT23, KRT5, DSG1, LAMC2, KRT27, KRT17, GJA3, KRT10, | ||
| GOTERM_CC_5 | intermediate filament | 13 | 6.40E-06 | KRT40, KRT33A, KRT25, KRTAP1-1, KRT23, KRTAP1-5, KRT5, KRT26, DSP, KRT27, KRT17, KRT10, PKP1 | ||
| GOTERM_CC_5 | cytoskeleton | 41 | 1.00E-08 | ACTN2, KRT40, DSC1, MYL1, PKP3, DSC3, LMOD2, MYH7, NEB, KRTAP1-1, KRT25, CSTA, MYH2, MYOZ2, KRT23, KRTAP1-5, SPRR3, KRT26, MYL3, KRT10, PKP1, KRT33A, ACTA1, KBTBD10, CGN, IVL, ELMOD1, DST, PDLIM3, MC1R, MYOM2, ELMO3, KRT5, MYBPC1, MYOT, SPTBN2, TCHH, KRT27, DSP, KRT17, LOR | ||
| GOTERM_CC_5 | intercellular junctions | 14 | 1.50E-07 | DSC1, COL17A1, PKP3, DSC3, GJB5, CLDN8, CGN, GJB4, DST, CLDN23, DSG1, DSP, GJA3, PKP1 | ||
| Genes upregulated in horned versus polled animals | GOTERM_CC_ALL | extracellular region | 28 | 4.80E-11 | GDF6, IGF1, PROC, ANG, DLK1, PTN, SCUBE1, FMOD, PLA2G7, CHI3L1, SPP2, CCL8, CP, HP, MASP1, SFRP4, SPON1, CFI, COL8A1, APOL3, CRLF1, PRSS2, PI15, FGG, FGF11, CCL19, TF, EPDR1 | |
| PvS | Genes down regulated in scurred versus polled animals | GOTERM_CC_5 | intermediate filament cytoskeleton | 11 | 7.50E-08 | KRT40, KRT33A, KRT15, KRTAP1-5, KRTAP2-1, KRT85, NEFH, KRT26, KRTAP1-1, KRT25, KRT27 |
| Genes upregulated in scurred versus polled animals | GOTERM_CC_5 | fibrillar collagen | 5 | 2.40E-07 | COL1A2, COL5A2, LUM, COL1A1, COL5A1 | |
| GOTERM_BP_5 | skeletal development | 13 | 2.80E-08 | COMP, PHEX, IBSP, DMP1, OSTN, ALX1, MEPE, COL1A2, SPP1, POSTN, SPP2, COL1A1, MMP9 | ||
| KEGG_PATHWAY | ECM-receptor interaction | 11 | 1.30E-08 | TNC, LAMA1, TNN, COL1A2, COL5A2, SPP1, COL6A6, COL1A1, ITGA11, IBSP, COL5A1 | ||
GO term = gene ontology term, BP = biological process, CC = cellular compartment, KEGG = Kyoto encyclopedia of genes and genomes, ECM = extracellular matrix, PvH = polled versus horned and PvS = Polled versus scurs. Down-regulated indicates genes that showing lower expression in one versus the other and up-regulated indicates genes showing higher normalised expression in one versus the other.