Pathways analysis indicated over-representation of genes involved in cell adhesion or metabolism in muscle-invasive UC.
Initial QC report indicated over-representation of Illumina adapter sequences in samples from EBI-AE data set and NCBI-GEO data set.
Examination of JASPAR transcription factor motifs in the promoters of genes in set #2 indicated over-representation of predicted binding sites of C/EBP and RELA (Bonferroni corrected Fisher's exact test P-values <0.05).
Functional analysis (Ingenuity Pathway Analysis) of these sex-different genes indicated over-representation of specific pathways and networks including renal tubule injury, drug metabolism, and immune cell and inflammatory responses.
Therefore, a transformed p ˜ value of −1 indicates underrepresentation of set G and +1 indicates over-representation.
However, if 246 events with unidentified status were not included this figure would indicate over-representation at 8.3%% [ 15].
Based on the analysis of the 4 significant N/H-biclusters, only the p-values for the HSE and E2F CREs were significant, indicating over-representation of these CREs (significance based on a 5% FDR cutoff).
RS-SNP assesses whether the number y of SNPs associated to the phenotype and belonging to is compatible with chance or indicates over-representation of associated SNPs in gene set.
Among those with a recorded value, 13.66% were recorded as from a minority ethnic group, which is higher than the estimated figure for 2006 based on the 2001 census, indicating over-representation of practices from ethnically diverse areas, that practices in ethnically diverse areas are more likely to record ethnicity, or most likely a combination of both.
A p-value lower than 0.05 indicates over representation of genes from the E-dependent DEG list within that particular category, suggestive of a functional effect.
The sub-categorization of this functional cluster indicated an over representation of genes involved in the regulation of protein biosynthesis like the 60S ribosomal proteins L13 and L15, the eukaryotic translation initiation factor 3, the seryl-aminoacyl-tRNA synthetase 1 and the asparatyl-tRNA synthetase 2 (Table 3).
