Table 1. Zebrafish anatomical structures showing a significant enrichment in expression of genes with a pectoral fin phenotype (FDR < 1%).
The “weight” algorithm of the topGO package was used to decorrelate the structure of the ontology.
| organId | organName | annotated | significant | expected | foldEnrichment | pValue | FDR |
|---|---|---|---|---|---|---|---|
| UBERON:0000151 | pectoral fin | 439 | 79 | 21.48 | 3.68 | 1.36E-27 | 1.47E-24 |
| UBERON:0004357 | paired limb/fin bud | 198 | 48 | 9.69 | 4.95 | 5.19E-23 | 2.80E-20 |
| UBERON:2000040 | median fin fold | 59 | 20 | 2.89 | 6.92 | 9.37E-13 | 3.38E-10 |
| UBERON:0003051 | ear vesicle | 391 | 49 | 19.13 | 2.56 | 5.50E-11 | 1.49E-08 |
| UBERON:0005729 | pectoral
appendage field |
20 | 11 | 0.98 | 11.22 | 3.05E-10 | 6.60E-08 |
| UBERON:0004376 | fin bone | 34 | 12 | 1.66 | 7.23 | 2.60E-08 | 4.69E-06 |
| UBERON:0011004 | pharyngeal arch
cartilage |
66 | 16 | 3.23 | 4.95 | 4.96E-08 | 7.65E-06 |
| UBERON:0003406 | cartilage of
respiratory system |
52 | 14 | 2.54 | 5.51 | 8.61E-08 | 1.16E-05 |
| UBERON:0004756 | dermal skeletal
element |
55 | 15 | 2.69 | 5.58 | 9.14E-07 | 1.10E-04 |
| UBERON:0003108 | suspensorium | 56 | 13 | 2.74 | 4.74 | 1.66E-06 | 1.79E-04 |
| UBERON:0004375 | bone of free limb
or fin |
27 | 9 | 1.32 | 6.82 | 2.77E-06 | 2.72E-04 |
| UBERON:0001042 | chordate pharynx | 417 | 44 | 20.40 | 2.16 | 3.38E-06 | 3.04E-04 |
| UBERON:0006068 | bone of tail | 11 | 6 | 0.54 | 11.11 | 4.67E-06 | 3.89E-04 |
| UBERON:0003128 | cranium | 334 | 37 | 16.34 | 2.26 | 5.25E-06 | 4.05E-04 |
| UBERON:4000170 | median fin skeleton | 26 | 8 | 1.27 | 6.30 | 2.00E-05 | 1.44E-03 |
| UBERON:0004117 | pharyngeal pouch | 51 | 11 | 2.49 | 4.42 | 2.32E-05 | 1.57E-03 |
| UBERON:0002533 | post-anal tail bud | 1447 | 95 | 70.79 | 1.34 | 2.77E-05 | 1.76E-03 |
| UBERON:0012275 | meso-epithelium | 1616 | 104 | 79.05 | 1.32 | 5.53E-05 | 3.32E-03 |
| UBERON:0002514 | intramembranous
bone |
23 | 7 | 1.13 | 6.19 | 7.36E-05 | 4.01E-03 |
| UBERON:0001708 | jaw skeleton | 108 | 24 | 5.28 | 4.55 | 7.77E-05 | 4.01E-03 |
| UBERON:0001003 | skin epidermis | 112 | 16 | 5.48 | 2.92 | 7.79E-05 | 4.01E-03 |
| UBERON:0002541 | germ ring | 117 | 16 | 5.72 | 2.80 | 1.33E-04 | 6.54E-03 |
| UBERON:0010188 | protuberance | 598 | 68 | 29.25 | 2.32 | 1.51E-04 | 7.01E-03 |
| UBERON:4000163 | anal fin | 12 | 5 | 0.59 | 8.47 | 1.57E-04 | 7.01E-03 |
| UBERON:0010363 | endochondral
element |
58 | 13 | 2.84 | 4.58 | 1.62E-04 | 7.01E-03 |
| UBERON:2000555 | opercular flap | 26 | 7 | 1.27 | 5.51 | 1.74E-04 | 7.25E-03 |
| UBERON:0007812 | post-anal tail | 1452 | 96 | 71.03 | 1.35 | 2.03E-04 | 8.13E-03 |