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In leaves, photosystem regulation was apparent as major regulated category.
Note that even thought some of these additional genes are likely directly regulated by FnrL they have remained in the "indirectly regulated" category (Additional file 2: Table S2) as it will require additional experimentation to determine which of genes are indeed under direct control by FnrL.
Surprisingly, neurogenesis also appeared as a regulated category.> -wrap-foot> Genes that were regulated by more than 2-fold (Expression) or transcripts alternatively spliced (Splicing) by cisplatin were analysed by the ToppFun Suite software.
Except for putatively diterpene biosynthesis-related genes, no other genes involved in terpenoid metabolism pathway were found in the trichome up regulated category.
Although extracellular region 'EC' is the top regulated category in irreversible inhibitor-resistant cell lines, important EGFR-activated cellular processes, including immunity, 'IM', angiogenesis, 'V', and cytoskeleton, 'CY', were upregulated (Additional file 8b).
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The current Gene Set Enrichment Analysis resulted in two significantly regulated categories- protein biosynthesis and carbohydrate metabolism.
The above discussed GSEA results might have masked regulated categories if they contained few differentially regulated genes but a high number of unregulated genes.
The lowest numbers of differentially regulated categories were detected between roots - Fe, nas4x-1 vs. wild type, and leaves + Fe, nas4x-1 vs. wild type.
* Up-regulated GO categories with a corrected p-value < 1.3E-15 1.3E-15ted, the top-down regulared GO category of the respective analistedis shown.
The high frequency of ribosomal protein genes in the down regulated gene category implies that ribosome biogenesis is greatly affected by myosin type II deficiency.
We demonstrated by DNA microarray analysis that the categories of cell envelope and transport/binding proteins are the most actively regulated gene categories in the ΔrovA mutant, and this was validated by subsequent experiments showing that the cell membranes of the mutant bacteria were both structurally and functionally disrupted.
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