Table 3 Information about publicly available mouse transcriptomic datasets used for the analysis in this study including mouse AD gene signatures derived from microglia of AD mouse models and AD mouse brain bulk tissue transcriptomics datasets with details including mouse cohort labels (used in the portal and figures), study traits, brain regions (or cell types) used in the study, accession ID# and references
Mouse Cohort Label | Trait | Brain Region (or Cell Type) | Accession ID# | Ref | |
|---|---|---|---|---|---|
1 | 5xFAD | Trem2-/- in WT and 5XFAD mice | CTX/HPC (microglia) | GSE65067 | [133] |
2 | TREM2_KO | WT, TREM2+/+, TREM2-/- and TREM2-/- mice | CTX (microglia) | GSE107293 | [174] |
3 | APP_SAA | WT, App-SAA [Swedish (KM670/671NL), Arctic (E693G) and Austrian (T712I)]. App-SAA: methoxy-positive and methoxy-negative fractions; WT: methoxy-negative | CTX/HPC (microglia) | GSE158153 | [99] |
4 | WT and App-SAA. App-SAA: HOM and Het; WT | GSE158152 | |||
5 | TREM2-/- | WT and TREM2-/-, Basal or after LPS administration | HPC (mix cell population) | Original publication (Table S1 and S2) | [171] |
6 | Tg2576 | Tg2576 Swedish APP (KM670/671NL) | CTX (mix cell population) | Original publication | [173] |
7 | TgCNRD8 | TgCRND8 Swedish plus Indiana APP (KM670/671NL + V717F) | CTX (mix cell population) | Original publication | [173] |
8 | 3xTg | WT, 3xTg-AD (APP Swedish, MAPT P301L, and PSEN1 M146V) | RB CTX/HPC (mix cell population) | syn22964719 | [172] |
9 | 5xFAD | 5xFAD, WT | RB HPC/CTX (mix cell population) | syn18637070 | [172] |
10 | hAbeta_KI | WT, human AbetaKI | RB HPC (mix cell population) | syn18670930 | [172] |
11 | 5xFAD | 5xFAD, WT | RB (mix cell population) | syn23638028 | [170] |
12 | Apoe4/Trem2_R47H | WT and APOE4.Trem2R47H: Replace the exons 2, 3 and most of exon 4 from the mice to the human APOE4 gene sequence, and a KI point mutation in Trem2 (R47H), along with 2 other silent mutations | RB (mix cell population) | syn18637029 | [170] |