Additional file 3: of Human Alzheimer’s disease gene expression signatures and immune profile in APP mouse models: a discrete transcriptomic view of Aβ plaque pathology

Table S1. Age and strain-related transcriptomic changes in AD models. RNAseq was carried out on cortexes isolated from Tg2576 (ages: 3mo, 6mo, 9mo, 12mo and 15mo, respectively), TgCRND8 (1.5mo, 3mo, 4.5mo, 6mo and 10mo, respectively) and WT age-matched controls mice. Data shows statistical analysis of age correlation between each strain, p-value and log10 analysis. Differentially expressed genes were identified by Pearson correlation or T-test using Matlab R2010b (Mathworks). A p-value cutoff of < 0.001 was used to identify differentially expressed genes. The FDR corresponding to this p-value is given in each of the comparisons to convey relative signature confidence. Set annotation analysis was performed by comparing input sets to GeneGo ( www.genego.com ), Ingenuity ( www.ingenuity.com ) and KEGG ( www.genome.jp/kegg/ ) pathway sets. Bonferroni corrected hypergeometric p-values expectation (e)-values) of less than 0.1 were considered significant overlap between sets. (XLS 7280 kb)