Frontotemporal dementia: insights into the biological underpinnings of disease through gene co-expression network analysis

Table 2 Module assignments for FTD-genes in frontal and temporal cortex

FTD genes	Affymetrix ID	type	Frontal cortex				Temporal cortex
FTD genes	Affymetrix ID	type	module	Sz (n)	MM	1-q	module	Sz (n)	MM	1-q
*MAPT*	3723687	pure	black	791	0.83	0.03	lightyellow	210	0.67	0.31
*GRN*	3722917		black	791	0.66	0.34	cyan	276	0.56	0.51
CHMP2B	2631845		darkolivegreen	63	0.76	0.48	green	1439	0.53	0.49
*HLA-DRA*	2903189		darkred ( p = 0.0046)	141	0.8	0.23	lightcyan ( p = 0.0139)	250	0.66	0.51
*CTSC*	3385769		darkred ( p = 0.0046)	141	0.73	0.5	lightcyan ( p = 0.0139)	250	0.69	0.47
*TMEM106B*	2990342		red	925	0.78	0.04	darkturquoise	164	0.86	0.01
*C9orf72*	3202421	spectrum	purple ( p = 0.0226)	1559	0.74	0.1	purple ( p = 0.0206)	830	0.75	0.14
*VCP*	3204404				0.68	0.19			0.71	0.24
*UBQLN2*	3978999				0.55	0.45			0.63	0.45
*OPTN*	3235726				0.59	0.38	grey60	220	0.53	0.8
FUS	3656904		lightcyan	209	0.58	0.61	midnightblue	268	0.64	0.31
FUS	3656950		blue	3329	0.31	0.69	pink	2979	0.39	0.58
FUS	3656954		blue	3329	0.5	0.38	magenta	1000	0.44	0.72
TDP-43	2320048		turquoise	4759	0.22	0.89	magenta	1000	0.53	0.54

The FTD-genes (with corresponding Affymetrix IDs) are listed. Co-expression modules for the FTD-genes and their relevance within modules are displayed. Sz = size, i.e. number of transcripts contained in the module; MM = module membership; 1-q = 1-quantile of MM. The bolded parts highlight the fact that WGCNA indicated the following: 1) (MAPT and GRN), (HLA-DRA and CTSC), (C9orf72, VCP, UBQLN2 and OPTN) and (2 FUS) transcripts were respectively present in the same modules in frontal cortex, and; 2) (HLA-DRA and CTSC), (C9orf72, VCP and UBQLN2) and (FUS and TARDBP) transcripts were respectively present in the same modules in temporal cortex. The modules containing (HLA-DRA and CTSC) and (C9orf72, VCP, UBQLN2 [and OPTN]) were significantly enriched for FTD transcripts

ISSN: 1750-1326