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Other functional groups were assigned to ubiquitination (9.7%), glycolysis (7.3%) mitochondrial processes (7.3%) and stress response (4.8%) (Fig. S1).
COG functional groups were assigned to orthologous groups using RPS-BLAST against the CDD database (23 August 2010) with all sequences of a group as query.
A total of 15 GO functional groups were assigned to the biological processes category, among which metabolic processes (24,958) and cellular processes (22,198) were the most highly represented.
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Groups were assigned randomly.
Based on gene ontology annotation, functional groups were successfully assigned to 790 UTs.
If the intersection area between group and functional region was not less 50% of minor sequences, then the group is assigned to considered region.
The molecular classification scheme divides β-lactamases into four classes based on the amino acid sequences of the proteins [ 8- 10], whereas numerically more functional groups have been assigned based on the hydrolysis and inhibition profiles of the enzymes [ 7, 10, 11].
The absorption bands and their assigned chemical functional groups are presented in Table 4. Based on the literature data, the absorption bands at 1600, 1508, and 1263 are assigned to the functional groups of lignin [ 6].
To facilitate the organization of the cranberry transcripts into putative functional groups, GO terms were assigned using Blast2GO [ 37].
Protein function classification based on the cluster orthologous genes classification (COG) database allowed us to place 1189 of the 1528 CDSs (77.81%) in at least one of the COG functional groups (Table 2): 454 were assigned to cellular processes and signaling systems, 342 to information storage and processing, while 595 were involved in metabolism.
The number of enhanced/diminished genes assigned to individual functional groups is shown in Figure 5.
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