Biology Reference
In-Depth Information
Fig. 2
Venn diagram of genes modulated by HD human and canine adenovectors
in human brain and hepatoma cells. The diagram shows the number of common
genes modulated by Helper Dependent Human and Canine adenovectors
(HD-HAd and HD-CAV-2, respectively) in differentiated hmNPCs and by HD-HAd
in the hepatoma line Huh7. Cells are transduced at MOI of 1,000 vector genomes
per cell. Transcriptome alteration data were obtained following hybridization of
RNA isolated from vector treated- and mock-cells on Affymetrix Gene Chips
Arrays. Between HD-HAd and HD-CAV-2, 40 genes are in common in hmNPCs, 3
genes between HD-HAd in hmNPCs and in Huh7, and 5 genes between HD-CAV-2
in hmNPCs and HD-HAd in Huh7. This analysis shows that if only single genes
are taken into consideration, the quality of response to the vectors appears
strongly dependent on the cell system and experimental conditions
Based on the selected algorithm the enrichment tools are
classifi ed as SEA (single enrichment analysis; like EASE and
DAVID), GSEA (gene set enrichment analysis; like GoMiner,
GFinder, and GProfi ler), and MEA (modular enrichment anal-
ysis; like GoToolBox) [
18
,
19
].
2. The common pipeline for enrichment analysis consists in
uploading a list of pre-selected differentially expressed genes
