Table 7.
Functional annotation clusters of up-regulated genes in uterine endometrium on D15 of pregnancy compared with those on D15 of the estrous cycle
| Annotation clustera | Enrichment scoreb | Biological termsc |
|---|---|---|
| 1 | 3.46 | Nuclear speck (7), nuclear body (8), RNA splicing (9) |
| 2 | 2.21 | Nucleotide binding (30), purine ribonucleotide binding (25), AT P binding (21), ribonucleotide binding (25), purine nucleotide binding (25), adenyl ribonucleotide binding (21), adenyl nucleotide binding (21), purine nucleoside binding (21), nucleoside binding (21) |
| 3 | 2.12 | Nuclear body (8), nucleoplasm part (12), nucleoplasm (15), membrane-enclosed lumen (24), nuclear lumen (20), intracellular organelle lumen (23), organelle lumen (23), nucleolus (9) |
| 4 | 1.51 | RNA splicing (9), mrna metabolic process (9), RNA processing (11), mrna processing (8), spliceosome assembly (3), RNA splicing, via transesterification reactions (5), RNA splicing, via transesterification reactions with bulged adenosine as nucleophile (5), nuclear mrna splicing, via spliceosome (5), RNA binding (11), ribonucleoprotein complex assembly (3), ribonucleoprotein complex biogenesis (4), cellular macromolecular complex assembly (5), cellular macromolecular complex subunit organization (5) |
| 5 | 1.15 | Nuclear body (8), nuclear export (4), nucleocytoplasmic transport (4), nuclear transport (4), mrna transport (3), establishment of RNA localization (3), nucleic acid transport (3), RNA transport (3), RNA localization (3), nucleobase, nucleoside, nucleotide and nucleic acid transport (3), intracellular transport (8) |
| 6 | 1.06 | Receptor-mediated endocytosis (4), membrane organization (8), membrane invagination (4), endocytosis (4), vesicle-mediated transport (6) |
| 7 | 0.96 | Helicase activity (6), ATP-dependent helicase activity (3), purine NTP-dependent helicase activity (3), atpase activity, coupled (4), atpase activity (4) |
| 8 | 0.95 | Enzyme binding (8), protein kinase binding (4), kinase binding(4) |
| 9 | 0.94 | Macromolecular complex assembly (11), macromolecular complex subunit organization (11), protein complex assembly (8), protein complex biogenesis (8), cellular macromolecular complex assembly (5), cellular macromolecular complex subunit organization (5), protein oligomerization (3) |
| 10 | 0.75 | Protein serine/threonine kinase activity (7), enzyme linked receptor protein signaling pathway (6), phosphate metabolic process (11), phosphorus metabolic process (11), protein kinase activity (8), protein amino acid phosphorylation (8), phosphorylation (9) |
Top ten of annotation clusters identified by official gene symbols of up-regulated gene list on D12 of pregnancy compared with those on D12 of the estrous cycle.
Enrichment score represents significance of each cluster annotation and the relatedness of the terms and the genes associated with terms. Enrichment score is calculated by overall EASE scores (the modified Fisher extract p value) of each term member.
The gene ontology (GO) terms are group of terms having similar biological meaning with respect to biological process, cellular component, and molecular function. GO functional annotation term (FAT) was used for the analysis because GO term cannot universally define the specificity of a given term. The number in parenthesis indicate the number of differentially expressed genes contribute to the clustered term.