Table 1.
AD associated preserved networks in AD brains
| Module | Z-summary | Enrichment P-value | |||
|---|---|---|---|---|---|
| ROSMAP | MAYO | NP | NFT | AD-RISK | |
| M1 | 40.56 | 20.71 | 3.74X10−6 | 3.26X10−9 | 0.04 |
| M2 | 37.45 | 20.68 | 3.50X10−8 | 2.57X10−7 | 0.002 |
| M3 | 35.48 | 18.59 | 5.38X10−5 | 8.36X10−7 | 0.01 |
| M4 | 32.32 | 18 | 3.42X10−2 | 1.25X10−5 | 0.07 |
| M5 | 29.83 | 15.91 | 1.46X10−6 | 2.92X10−4 | 0.40 |
| M6 | 26.56 | 14.46 | 4.70X10−6 | 0.09 | 0.09 |
| M7 | 25.84 | 14.23 | 2.65X10−3 | 2.47X10−4 | 0.12 |
| M8 | 20.52 | 14.07 | 0.47 | 0.02 | 0.20 |
| M9 | 20.51 | 12.71 | 4.34X10−3 | 8.89X10−4 | 0.37 |
| M10 | 18.25 | 12.64 | 0.02 | 0.16 | 0.16 |
| M11 | 17.32 | 11.81 | 8.70X10−4 | 7.48X10−4 | 0.01 |
| M12 | 17.06 | 10.55 | 1.00 | 0.05 | 0.95 |
| M13 | 15.57 | 8.59 | 0.02 | 0.03 | 0.81 |
| M14 | 14.79 | 7.81 | 0.06 | 0.04 | 0.48 |
Module is a co-expressed gene network in the discovery from the Framingham Heart Study and Boston University Alzheimer’s Disease Center (FHS/BUADRC) study.
Z-summary is a network preservation score of a module from the discovery to at least one of two validation datasets, the Religious Orders Study and Rush Memory and Aging Project (ROSMAP) and the Mayo Clinic Study of Aging (MAYO).
Enrichment p-value for a module were computed using genes in the given module containing a SNP with P<10−3 from Beecham et al. for neuritic plaque [NP] and neurofibrillary tangles [NFT] [18] and from Kunkle et al. for AD-risk [19].
Fourteen modules were selected when a module in the FHS/BUADRC study was preserved with Z-summary>5 in both validation datasets, ROSMAP and MAYO, and significant at p-value<0.05 with at least one of the gene-sets for NP, NFT, or AD-risk.