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Because we detected some errors in the functional annotation for some Unigenes, functional categorization of each Unigene was verified or corrected manually using BLAST functions at PLEXdb.
Figure 4: Functional categorization of the 154 differentially expressed proteins.
Fig. 1 Functional categorization of differentially expressed rice genes.
Open image in new window Fig. 3 Functional categorization of differentially expressed genes.
Among them, proteins of the energy and metabolism groups accounted for more than 65.7% of the total number identified. Figure 5 Functional categorization of the GA-responsive proteins.
GO analysis was performed for the functional categorization of differentially expressed genes using the Plant GeneSet Enrichment Analysis Toolkit (Yi et al. 2013) and agriGO tool (http://bioinfo.cau.edu.cn/agriGO/).
Details about the computational analysis of shotgun proteomics data, including data filtering, peptide/protein identification and quantification, statistical analysis of quantitative data, as well as the functional categorization of the differentially expressed proteins are provided in the Additional file 1.
Protein Knowledgebase (UniProtKB; http://www.uniprot.org/) was used for the functional categorization of identified genes.
In the following the main results derived from both samplings are summarized according to the functional categorization of target genes: Characteristically, S. aureus expresses adhesins in the early stages of growth, whereas toxins are produced in the late stages.
Functional categorization of genes in the severely attenuated mutants revealed significant enrichment for RNA binding proteins, suggesting the significance of post-transcriptional gene regulation in parasite development and emphasizing its importance as an antimalarial target.
For this task, we utilised the functional categorization of Prochlorococcus marinus MED4 by the Cyanobase (http://www.kazusa.or.jp/cyano/) where 1193 genes are associated with 16 main and 62 sub-categories [114].
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