AGEMAP: a gene expression database for aging in mice

 

Figures

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Figure 1. Genes and gene sets that are commonly age-regulated in multiple tissues. A. Rows indicate individual genes, arranged from the gene that exhibits the greatest increase in expression with age across multiple tissues at top, to the gene that shows the greatest decrease in expression with age in multiple tissues at bottom. Each column corresponds to an individual mouse tissue. Scale corresponds to the slope of the change in log2 expression with age (1j). Dendrogram colors indicate affiliation with either the neural (red), vascular (blue), or glandular (yellow) tissue groups. B. Rows indicate individual gene sets, arranged from the gene set increasing expression most on average with age in multiple tissues at top, to the most decreasing with age. Each column corresponds to an individual mouse tissue. Scale is the van der Waerden Z-value as determined by gene set enrichment analysis. Dendrogram colors indicate affiliation with either the neural (red), vascular (blue), or glandular (yellow) tissue groups.

 

 

Figure 2. Differences in age-regulation between glandular, neural and vascular tissues. Columns refer to tissues, and rows correspond to gene sets. Vertical red bars divide tissues into neural, vascular and glandular tissue groups from left to right. Tissue names are colored to indicate affiliation with either neural (red), vascular (blue), or glandular (yellow) tissue groups. Horizontal red bars divide gene sets into those chosen for being particularly age-regulated in glandular, neural or vascular tissues (p-value < 0.001, all Z > |1.0|, p-value > 0.5 in remaining two tissue groups) from top to bottom. Scale indicates van der Waerden Z-scores as determined by Gene Set Enrichment Analysis.

Figure 3. Coordinate aging between tissues in individual mice. Columns refer to tissues. Rows refer to individual mice. Identification of individual mice indicates sex (M or F), age (A1 to A4), and biological repeat (a to e); for instance, FA1a is female mouse, age 1 month, biological repeat a. Scale indicates the rank of that individual mouse with its tissue and age cohort; a low rank corresponds to a mouse that expresses age-regulated genes as an older mouse, while a high rank expresses age-regulated genes as a younger mouse. Each p-value listed indicates the significance of tissue-coordinated aging for that age cohort. Asterisks indicate mice that showed a consistently high or low level of aging for their actual age (p < 0.05).
Figure 4. age-regulation in human, mice, flies and worms. A: Comparison of age-related expression changes for 2,578 orthologous genes in humans, mice, flies and worms. Rows correspond to genes, arranged from the genes showing the greatest decrease in expression with age in both human and mouse at top to the genes showing the greatest increase in expression with age in both human and mouse at bottom. Columns correspond to tissues; tissue names are colored to denote their species of origin, either human (red) or mouse (black). Scale corresponds to the slope of the change in log2 expression with age (1j). B: Comparison of age-related expression changes for 280 gene sets in humans, mice, flies and worms. First row is the mitochondrial electron transport chain gene set, which was found to be age-regulated in flies and worms in addition to mammals. Second row is the lysosome gene set, which was found to be age-regulated in flies in addition to mammals. Other rows correspond to gene groups that are commonly age-related in humans and mice alone. Scale refers to a Van der Waerden Z-score. Otherwise as A.
Figure 5. No overall correlation of age-regulated expression changes between mouse and human. A: Comparison of age-related expression changes for 2,578 orthologous genes in mouse and human. The y-axis indicates the Fisher's meta-analysis value for 3 human tissues (muscle, kidney and brain). The x-axis shows the Fisher's meta-analysis value for 9 age-regulated mouse tissues. Data points are the more significant one of two Fisher's meta-analysis values. Blue diamonds show genes that are age-regulated to p < 0.01 in both human and mouse (p < 0.0001 overall). Red squares show all other genes. B: Comparison of age-related expression changes for 280 gene sets in mouse and human. Otherwise as A.
Supplemental Figure 1. No overall correlation of age-regulated expression changes between mouse and human in kidney and muscle. A: Comparison of aging coefficients for 106 genes found to be age-regulated in human kidney in both human and mouse. The x-axis shows the change in expression with age for each of 106 genes in the aging human kidney data (scale is expression per year.) Similarly, the y-axis shows the change in expression with age for the same genes in the aging mouse kidney data (expression per month.) B: Comparison of aging coefficients for 22 genes found to be age-regulated in human muscle. The x-axis refers to aging coefficients in human muscle while the y-axis refers to aging coefficients in mouse muscle. Otherwise as A.