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One of the most significant molecular function groups of EWS-FLI1 repressed genes is FG-3 which combines genes involved in chelation/metal ion binding and acetylation.
Of more than 1200 proteins detected, 98 proteins representing at least 20 molecular function groups including kinases, proteases, adhesion, calcium binding and cytoskeletal proteins were found to display significant expression changes across the MCF10AT model.
Since the catalytic activity is the most prevalent and the most heterogeneous group among all molecular function groups, it was further analyzed in more detail.
Enrichment analysis of differentially expressed genes showed overlap of molecular function groups in response to all three radiation qualities, including Cell Cycle, Cell Death, DNA Replication, Recombination and Repair, Cellular Compromise, and Cellular Growth and Proliferation.
The comparison of the distribution of P. vulgaris unigenes among GO molecular function groups with that of A. thaliana suggests that this 454 unigene set is broadly representative of the P. vulgaris transcriptome.
DNA-binding proteins was one of the largest molecular function groups among regulated genes, and bioinformatic analysis of the temporal gene expression profile indicated that transcription factors foxl1, wt1, nr5a1, nr6a1, and especially, hnf4a may be key coordinators of the homeostatic response to zinc depletion.
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Although the molecular function group showed 18 functional groups only 12 were differentially expressed (C).
For the EWS-FLI1 up-regulated gene set (Figure 3A and 3B) the largest molecular function group is FG-2 - "mitotic cell cycle" - which comprises five more FGs that share the same center in the MDS plot.
In the molecular function group, these unique sequences (24,732; 25.46 %) were divided into 17 groups.
The largest subcategory in the molecular function group was 'hydrolase activity', which was represented by 24.9% of the clustered genes.
In the molecular function group, binding and catalytic activity were largest two sub-categories, containing 13,223 (49.95%) and 13,422 (50.71) unigenes, respectively.
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