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To computationally explore the potential functional relevance of dynamically regulated miRNAs during lung development, we employed biological process and pathway analysis.
Parallel patterns were demonstrated for miRNA and gene expression, when cell cycle and hematopoiesis were the most significant biological process and pathway among the downregulated genes, and accordingly, miRNAs engaged with the regulation of cell cycle and hematopoiesis were downregulated, whereas cell cycle-inhibiting miRNAs were upregulated upon liver maturation.
P-values of binomial statistic were obtained for Panther classification categories for each molecular function, biological process and pathway term.
Functional enrichment analysis of the candidate miRNAs target genes revealed some important biological process and pathway maps.
Subsequently, we performed functional annotation clustering of the differentially expressed proteins according to cellular component, biological process and pathway.
To identify potential common pathways, gene lists obtained by ASE and DE analysis were analyzed for biological process and pathway enrichment using DAVID [ 16].
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See supplementary data for a full description of genes, biological process and pathways regulated in CoQ10 deficiency.
MetaCore™ identifies enriched biological process and pathways within gene sets using the Gene Ontology™ and GeneGo™ Ontologies, the latter derived from curated databases of experimentally validated interactions.
RNAi has provided a unique tool for sequence-specific silencing to develop practical strategies for studying gene function, biological processes and pathway analysis [44].
Table 5 shows the enrichment with respect to GO biological processes and pathway analysis for these clique connectivity profiles.
Lastly, we used ontological categories and pathway analyses of the MetaCore "Biological Processes" and "Pathway Maps" as a third independent validation of our results from GSEA.
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