Exact(4)
Cyclin D2, which belongs to the cell cycle/DNA replication category, was confirmed to be up-regulated 3-fold (Figs. 4d and f).
For the genes belonging to the DNA‐dependent DNA replication category, there is a strong up‐regulation of these transcripts from the earliest time points in development (0.5‐1.5h embryos) through approximately mid‐embryogenesis (11‐12h embryos).
The numerous paralogs in the replication category are mostly linked to transposases which can be seen in Figure 2 where the "t" column is a sub-set of the L category, representing 26 transposase COGs.
As suggested from the data in Fig. 4a however, the DNA replication category (GO0006261; p value of 2.61 × 10−5) was found to be significantly over-represented, along with two describing the cell cycle (GO0007049 (p value 1.43 × 10−4) and GO0022402 (p value 3.63 × 10−2).
Similar(56)
The number of amplifications was associated with mitosis, cell cycle and to a lesser extent, DNA replication categories.
Approximately one quarter of the genes were enriched for cell cycle and DNA replication categories, the areas that showed the most significant enrichment of all groups of genes.
∗CG number not known DNA‐dependent DNA replication GO‐BP category (along with oxidative phosphorylation) was selected for further biological validation using fluorescent in situ hybridization (FISH) analysis of early D. melanogaster embryos.
Let λ n, n ∈ { 1, 2, 3 } be the relative rates of mutation for a position in replication timing category n, and let ε h, h ∈ { 1, 2, 3 } be the relative rates of mutation for a position in expression level category h.
The obligate plant symbiont ' Nostoc azollae' 0708 (NoAz) is unusual in that it contains comparatively few paralogs, most of which fall into the Replication (L) category, and to some degree the Cell cycle control, cell division and chromosome partitioning (D) functional classes, and the uncharacterised S category.
Enrichment of nucleotide metabolism and DNA replication related categories could also reflect the high cell division activity during the initiation of cambium in the IN3 region.
A significant overrepresentation of pseudogenes is particularly evident in the category Replication, recombination and repair (L) but is also displayed in the categories Secondary metabolites biosynthesis and metabolism (Q), Chromatin structure and dynamics (B), Signal transduction mechanisms (T) and Function unknown (S) (Figure 4B).
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