Table 2. Gene ontology of genes differentially expressed (a) in normal adult retina and (b) retinoblastoma.
| Cluster | GO term | Fold enrichment | P-value |
|---|---|---|---|
|
(a) | |||
| Annotation cluster 1 | Enrichment score: 14.46 | ||
| GOTERM_BP_FAT | GO:0007601∼visual perception | 3.32 | 0.0000 |
| GOTERM_BP_FAT | GO:0050953∼sensory perception of light stimulus | 3.32 | 0.0000 |
| GOTERM_BP_FAT |
GO:0007600∼sensory perception |
1.07 |
0.3013 |
| Annotation cluster 2 | Enrichment score: 8.82 | ||
| GOTERM_BP_FAT | GO:0008104∼protein localisation | 1.65 | 0.0000 |
| GOTERM_BP_FAT | GO:0045184∼establishment of protein localisation | 1.65 | 0.0000 |
| GOTERM_BP_FAT |
GO:0015031∼protein transport |
1.64 |
0.0000 |
| Annotation cluster 3 | Enrichment score: 7.20 | ||
| GOTERM_BP_FAT | GO:0007602∼phototransduction | 5.64 | 0.0000 |
| GOTERM_BP_FAT | GO:0009583∼detection of light stimulus | 5.01 | 0.0000 |
| GOTERM_BP_FAT | GO:0009582∼detection of abiotic stimulus | 3.29 | 0.0000 |
| GOTERM_BP_FAT | GO:0009581∼detection of external stimulus | 2.89 | 0.0000 |
| GOTERM_BP_FAT |
GO:0051606∼detection of stimulus |
2.37 |
0.0000 |
| Annotation cluster 4 | Enrichment score: 6.15 | ||
| GOTERM_BP_FAT | GO:0046530∼photoreceptor cell differentiation | 5.58 | 0.0000 |
| GOTERM_BP_FAT | GO:0042461∼photoreceptor cell development | 5.43 | 0.0000 |
| GOTERM_BP_FAT | GO:0001754∼eye photoreceptor cell differentiation | 5.32 | 0.0000 |
| GOTERM_BP_FAT |
GO:0042462∼eye photoreceptor cell development |
5.12 |
0.0000 |
| Annotation cluster 5 | Enrichment score: 5.25 | ||
| GOTERM_MF_FAT | GO:0043167∼ion binding | ||
| GOTERM_MF_FAT | GO:0046872∼metal ion binding | 1.17 | 0.0000 |
| GOTERM_MF_FAT | GO:0043169∼cation binding | 1.16 | 0.0000 |
| GOTERM_MF_FAT | GO:0043169∼cation binding | 1.16 | 0.0000 |
|
(b) | |||
| Annotation cluster 1 | Enrichment score: 185.65 | ||
| GOTERM_MF_FAT | GO:0004984∼olfactory receptor activity | 9.23 | 0.0000 |
| GOTERM_BP_FAT | GO:0007606∼sensory perception of chemical stimulus | 7.95 | 0.0000 |
| GOTERM_BP_FAT | GO:0007608∼sensory perception of smell | 8.35 | 0.0000 |
| KEGG_PATHWAY | hsa04740:Olfactory transduction | 6.36 | 0.0000 |
| GOTERM_BP_FAT | GO:0007600∼sensory perception | 4.96 | 0.0000 |
| GOTERM_BP_FAT | GO:0007186∼G-protein-coupled receptor protein signalling pathway | 4.09 | 0.0000 |
| GOTERM_BP_FAT | GO:0050890∼cognition | 4.46 | 0.0000 |
| GOTERM_BP_FAT |
GO:0050877∼neurological system process |
3.50 |
0.0000 |
| Annotation cluster 2 | Enrichment score: 20.53 | ||
| GOTERM_BP_FAT | GO:0000279∼M phase | 3.44 | 0.0000 |
| GOTERM_BP_FAT | GO:0022403∼cell cycle phase | 2.94 | 0.0000 |
| GOTERM_BP_FAT | GO:0022402∼cell cycle process | 2.30 | 0.0000 |
| GOTERM_BP_FAT |
GO:0007049∼cell cycle |
2.07 |
0.0000 |
| Annotation cluster 3 | Enrichment score: 19.54 | ||
| GOTERM_BP_FAT | GO:0000280∼nuclear division | 3.68 | 0.0000 |
| GOTERM_BP_FAT | GO:0007067∼mitosis | 3.68 | 0.0000 |
| GOTERM_BP_FAT | GO:0000087∼M phase of mitotic cell cycle | 3.62 | 0.0000 |
| GOTERM_BP_FAT | GO:0048285∼organelle fission | 3.54 | 0.0000 |
| GOTERM_BP_FAT |
GO:0000278∼mitotic cell cycle |
2.64 |
0.0000 |
| Annotation cluster 4 | Enrichment score: 7.86 | ||
| GOTERM_BP_FAT | GO:0051321∼meiotic cell cycle | 3.46 | 0.0000 |
| GOTERM_BP_FAT | GO:0051327∼M phase of meiotic cell cycle | 3.41 | 0.0000 |
| GOTERM_BP_FAT |
GO:0007126∼meiosis |
3.41 |
0.0000 |
| Annotation cluster 5 | Enrichment score: 5.79 | ||
| GOTERM_BP_FAT | GO:0065004∼protein-DNA complex assembly | 3.67 | 0.0000 |
| GOTERM_BP_FAT | GO:0031497∼chromatin assembly | 3.56 | 0.0000 |
| GOTERM_BP_FAT | GO:0006334∼nucleosome assembly | 3.41 | 0.0000 |
| GOTERM_BP_FAT | GO:0034728∼nucleosome organisation | 3.20 | 0.0000 |
| GOTERM_BP_FAT | GO:0006333∼chromatin assembly or disassembly | 2.63 | 0.0000 |
| GOTERM_BP_FAT | GO:0006325∼chromatin organisation | 1.07 | 0.4285 |
Abbreviation: GO=gene ontology.
Genes with at least two-fold (q⩽0.05) differential expression in normal adult retina vs retinoblastoma were analysed using DAVID (http://david.abcc.ncifcrf.gov). The top five most highly enriched clusters of GO terms are presented. The group enrichment score used to rank biological significance is the geometric mean (in −log scale) of member's P-values in a corresponding annotation cluster. GOTERM_BP: Biological Process. GOTERM_MF: Molecular function. G0_FAT: includes a subset of the Gene Ontology term set created in order to filter the broadest terms so that they do not overshadow the more specific terms.