Table 2.

Aggression-related brain gene regulation in honey bees: Number of genes overlapping between gene sets and regulated in the same direction

Experiment	Old bee				AHB guard				AHB soldier				AHB forager
	Expected	Observed no.	RF	P value	Expected	Observed no.	RF	P value	Expected	Observed no.	RF	P value	Expected	Observed no.	RF	P value
Alarm pheromone	55.3	139	2.5	<0.0001	10	14	1.4	0.13	21.8	41	1.9	<0.0001	2.3	4	1.7	0.16
Old bee					28.8	27	0.9	0.41	63.7	105	1.6	<0.0001	6.8	14	2.1	0.006
AHB guard (I)									11.6	75	6.5	<0.0001	1.2	24	19.5	<0.0001
AHB soldier (I)													2.7	29	10.7	<0.0001
Alarm pheromone	55.3	139	2.5	<0.0001	19.8	18	0.9	0.4	33.6	47	1.4	0.011	13.9	19	1.4	0.1
Old bee					57.1	70	1.2	0.04	98.3	162	1.5	<0.0001	40.3	57	1.4	0.004
AHB guard (C)									35.4	151	4.3	<0.0001	14.6	87	6.0	<0.0001
AHB soldier (C)													24.9	97	3.9	<0.0001

Data are from the following: Experiment 1, AHB vs. EHB (guards, soldiers, and foragers); Experiment 2, alarm pheromone induced; and Experiment 3, old vs. young bees. Expected, the number of genes expected to overlap in all three experiments by chance alone; RF, representation factor; I, individual genotype; C, colony genotype. The statistical significance of the overlap between two lists was determined using an exact hypergeometric test and an extended version of the hypergeometric test for the overlap between three lists (see SI Text).