Table 2 LMM P-values of 37 potential DGEs (p-values < 0.0001) identified by LMM using the discovery ROS/MAP RNA-Seq data of DLPFC, for at least one trait of the cognitive decline and three AD pathologies.

From: Differential gene expression analysis based on linear mixed model corrects false positive inflation for studying quantitative traits

Gene name

CHR

Cognitive decline

\(\beta\)-Amyloid

Tangle density

Global AD pathology

PDPN

1

1.59 × 10–2

1.88 × 10–5*

2.18 × 10–2

1.87 × 10–5*

PTPRF

1

1.74 × 10–3

1.12 × 10–1

1.29 × 10–5*

2.33 × 10–2

TNFRSF18

1

1.01 × 10–5*

6.60 × 10–3

1.17 × 10–1

4.23 × 10–2

CCDC75

2

3.33 × 10–2

9.37 × 10–1

7.15 × 10–5*

1.42 × 10–1

ANTXR1

2

5.08 × 10–1

2.49 × 10–5*

1.19 × 10–1

5.33 × 10–4

SLC11A1

2

2.19 × 10–1

3.17 × 10–4

6.47 × 10–2

4.85 × 10–5*

MYRIP

3

8.30 × 10–5*

3.22 × 10–1

2.31 × 10–1

1.41 × 10–1

CCDC80

3

5.85 × 10–1

1.93 × 10–5*

1.06 × 10–1

4.13 × 10–5*

C3orf58

3

3.36 × 10–1

6.13 × 10–5*

1.48 × 10–1

1.43 × 10–3

RP11-792D21.2a

4

5.45 × 10–2

2.65 × 10–6*

5.35 × 10–7*

1.66 × 10–8*

NPNTa

4

1.38 × 10–7*

5.62 × 10–6*

5.07 × 10–7*

2.13 × 10–5*

ADAMTS2

5

3.62 × 10–5*

6.51 × 10–4

6.87 × 10–3

3.06 × 10–3

DDAH2a

6

7.10 × 10–1

4.09 × 10–4

8.11 × 10–4

3.21 × 10–7*

PGM3

6

4.65 × 10–2

7.32 × 10–2

1.15 × 10–5*

8.34 × 10–3

TRIP6

7

6.79 × 10–2

5.76 × 10–4

3.05 × 10–3

1.17 × 10–5*

HRSP12

8

7.81 × 10–2

1.37 × 10–5*

8.12 × 10–2

5.15 × 10–4

TNCa

9

3.82 × 10–1

3.43 × 10–6*

4.42 × 10–1

1.38 × 10–2

PLCE1

10

5.76 × 10–3

9.20 × 10–5*

2.03 × 10–5*

3.28 × 10–5*

CD44

11

2.75 × 10–1

1.85 × 10–5*

3.47 × 10–2

9.56 × 10–5*

APLNR

11

7.49 × 10–1

4.14 × 10–5*

3.35 × 10–2

2.29 × 10–4

RERGa

12

1.44 × 10–3

7.77 × 10–7*

7.10 × 10–4

8.03 × 10–7*

SLCO1A2

12

6.78 × 10–5*

2.81 × 10–1

9.23 × 10–2

1.12 × 10–1

CPM

12

6.34 × 10–2

3.65 × 10–5*

1.21 × 10–2

2.93 × 10–4

KITLG

12

1.27 × 10–3

4.09 × 10–2

8.29 × 10–4

7.47 × 10–5*

ALDH6A1a

14

4.93 × 10–1

7.95 × 10–5*

7.63 × 10–4

2.63 × 10–6*

KREMEN2

16

2.97 × 10–2

1.80 × 10–1

3.44 × 10–5*

8.52 × 10–2

APOBR

16

5.73 × 10–2

7.26 × 10–6*

1.44 × 10–2

4.73 × 10–5*

CMTM3

16

2.45 × 10–5*

1.53 × 10–2

6.60 × 10–5*

2.48 × 10–2

HIGD1B

17

1.60 × 10–1

1.05 × 10–3

1.09 × 10–2

5.29 × 10–5*

GFAP

17

4.13 × 10–2

9.11 × 10–6*

1.70 × 10–3

2.18 × 10–5*

PLCD3a

17

5.40 × 10–1

4.14 × 10–7*

1.14 × 10–1

2.15 × 10–5*

RNF43

17

1.48 × 10–3

1.04 × 10–3

1.99 × 10–3

8.44 × 10–5*

ACAA2

18

1.80 × 10–1

3.83 × 10–4

2.61 × 10–2

7.10 × 10–5*

PODNL1

19

8.34 × 10–1

5.67 × 10–5*

9.29 × 10–1

3.86 × 10–3

MEIS3a

19

8.21 × 10–9*

2.53 × 10–2

7.67 × 10–6*

8.24 × 10–4

YWHAB

20

2.57 × 10–1

1.87 × 10–5*

7.53 × 10–1

7.75 × 10–3

NHS

23

1.34 × 10–1

8.74 × 10–5*

8.47 × 10–2

2.53 × 10–4

  1. aSignificant DGEs with Bonferroni correction (p-value < 3.49 × 10–6).
  2. *Indicating the corresponding trait (columns 3–6) for which the potential DGE was identified (P-values < 0.0001).
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