Table 1.

Comparison of ALLENMINER results to published sets of regionally enriched genes

Benchmark set	Num	ROC	Optimal
	genes	AUC	Score	TPR	FPR
Manually curated ABA listsa
Cerebellum	99	0.977	3.553	0.970	0.050
Cortex	98	0.979	1.715	0.969	0.063
Hippocampus	98	0.961	3.515	0.908	0.072
HY	95	0.977	1.530	0.968	0.070
Midbrain	95	0.951	1.352	0.926	0.081
Medulla	95	0.953	2.460	0.958	0.112
OLF	99	0.953	2.489	0.949	0.111
Pallidum	98	0.965	1.299	0.949	0.088
Pons	97	0.951	1.580	0.969	0.103
Retrohippocampal region	99	0.958	1.819	0.929	0.089
Striatum	97	0.991	2.514	0.959	0.019
Thalamus	99	0.982	2.553	0.960	0.045
Published microarray results
Amygdalab	20	0.606	1.478	0.600	0.348
Cerebellum	112	0.679	1.037	0.652	0.369
Hippocampus	53	0.699	1.441	0.660	0.368
Olfactory bulb	68	0.735	1.371	0.647	0.275
Periaqueductal gray	47	0.679	0.609	0.617	0.344
VMHc	37	0.792	1.412	0.703	0.185

ROC analysis quantified the accuracy of the ALLENMINER enrichment score in discriminating regionally enriched genes, as defined by manual curation or microarray analysis, from the remaining ABA genes. The ‘optimal’ true positive (TPR) and false positive rates (FPR) for the score threshold closest to the perfect classifier (TPR = 1, FPR = 0), along with the AUC, are described for each benchmark set.

^aLein et al. (2007).

^bZirlinger et al. (2001).

^cKurrasch et al. (2007).