Table 6.
Functional annotation clusters of down-regulated genes in uterine endometrium on D12 of pregnancy compared with those on D12 of the estrous cycle
| Annotation clustera | Enrichment scoreb | Biological termsc |
|---|---|---|
| 1 | 2.04 | Plasma membrane part (22), integral to plasma membrane (11), intrinsic to plasma membrane (11) |
| 2 | 2.03 | Cell adhesion (11), biological adhesion (11), cell-cell adhesion (4) |
| 3 | 1.50 | Leukocyte activation (7), cell activation (7), lymphocyte activation (6), T cell activation (4), immune effector process (4), regulation of leukocyte activation (4), regulation of cell activation (4), leukocyte mediated immunity (3), cell surface (5), positive regulation of response to stimulus (4), positive regulation of immune system process (4), immune response (7), external side of plasma membrane (3) |
| 4 | 1.48 | Immune system development (7), hemopoiesis (6), hemopoietic or lymphoid organ development (6), myeloid cell differentiation (3), protein homodimerization activity (4), nucleoplasm part (3) |
| 5 | 1.46 | Cell junction (7), adherens junction (4), anchoring junction 4) |
| 6 | 1.45 | Biopolymer glycosylation (4), glycoprotein biosynthetic process (4), glycoprotein metabolic process (4), glycosylation (4), protein amino acid glycosylation (4) |
| 7 | 0.98 | Apoptosis (7), programmed cell death (7), cell death (7), death (7), negative regulation of cell proliferation (4) |
| 8 | 0.83 | DNA metabolic process (8), response to DNA damage stimulus (5), DNA repair (4), cellular response to stress (5), DNA binding (7) |
| 9 | 0.83 | Induction of apoptosis (5), induction of programmed cell death (5), positive regulation of apoptosis (5), positive regulation of programmed cell death (5), positive regulation of cell death (5), regulation of apoptosis (7), regulation of programmed cell death (7), regulation of cell death (7) |
| 10 | 0.76 | Response to ionizing radiation (3), response to radiation (3), response to abiotic stimulus (3) |
Top ten of annotation clusters identified by official gene symbols of up-regulated gene list on D15 of pregnancy compared with those on D15 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.