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My complete analysis list is included below.
The goal of GSEA is to determine whether members of a gene set A tend to occur toward the top (or bottom) of the list of genes analysed by microarrays, and ordered by the statistics (Z score) used in the differential expression analysis (list B), in which case the gene set is correlated with the phenotypic class distinction.
Among them, CDKN2A and HDAC3 were identified as significantly over-expressed, and NRAS and CD44 as significantly decreased in [PIP+] versus [PIP−] samples, as detected by both microarray analysis (list L235) and Q-PCR (Figure 4, grey shaded symbols and underlined names).
Valine, leucine, and lsoleucine degradation and carbohydrate metabolism are the two most significant pathways in the analysis list.
Additional file 7: Information on the 96 accessions used in the association study and diversity analysis: List of accessions, subgroups and phenotypic data.
This procedure was used as a standard during cDNA synthesis for Experiment 4. Subsets of over-expressed genes from the microarray analysis list and reference genes were selected for re-analysis and comparison using qPCR.
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Alternatively, send email to the authors of this analysis, listed below.
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CEO of Professional Science Editing for Scientists @ prosciediting.com