TABLE 2.

Characteristics of brain eQTL hotspots

Hotspota	No. of transcriptsb	Mean additive effectc	Mean LRd	Mean PVE (%)e	Proportion same directionf	Linkage groupg	Location (cM)g
Combined data set
C1	5	−0.72	25.40	56.8	1	1m	316.8
C2	19	−0.49	21.73	42.3	0.95**	10f	18.5
C3	17	−0.77	25.08	71.7	0.94**	36f	106.1
Female data set
F1	5	0.74	20.38	70.1	1	10m	35.3
F2	6	1.00	25.58	62.5	1	12f	90.9
F3	8	0.54	22.71	63.9	1	24f	6.9
F4	6	0.03	21.75	67.0	0.67	26m	19.7
F5	14	−0.66	22.15	75.9	0.86*	36f	107.6
Male data set
M1	6	−0.75	21.96	64.7	1	2m	8.3
M2	8	−0.55	22.16	72.8	1	12m	180.8
M3	6	0.60	23.10	73.1	1	12f	58.0
M4	32	0.70	24.81	72.1	1	24f	125.6

^aHotspot identification code.

^bNumber of transcripts within a hotspot.

^cDirection of mean effects indicates the overall direction of transcripts within a hotspot and is the direction referred to in the “Proportion same direction” column.

^dMean likelihood ratio of transcripts within a hotspot.

^eMean and direction of additive effects of transcripts within a hotspot.

^fA value of “1” indicates that the additive effects of all eQTL of a hotspot were in the same direction. A χ² test was used to test for significant deviations from a 1:1 proportion of positive and negative effects within hotspots. When the proportion in same direction is 1, the result is highly significant. *P < 0.01; **P < 0.001.

^gLinkage groups and chromosomal locations are numbered following Rogers and Bernatchez (2007) and Rogers et al. (2007).