Genes and gene pathways affected by Hsa21 trisomy. Pathway analysis was performed with Pathway Miner software on the 473 genes dysregulated in trisomic samples. The most affected pathways are: Oxidative Phosphorylation (cluster 1), containing 16 genes downregulated in trisomic samples, and Focal Adhesion (cluster 2), containing at least 7 genes upregulated in trisomic samples. Cluster 3 is a network of Cell Adhesion genes, mostly upregulated in trisomic samples. Downregulated genes in cluster 1 are all mitochondrial genes; upregulated genes in clusters 2 and 3 are mostly ECM genes. Green indicates downregulated genes (darker green = more downregulated); red indicates upregulated genes (darker red = more upregulated).