Genes identified by our method suggest putative roles of several biological processes in Alzheimer’s disease, including mitochondrial dysfunction (indicated by UQCR11, MTCH2 and TMEM135), cholesterol transportation (indicated by TMEM135 and OSBP), and neuron activity (indicated by ADRA1A). Here, MTCH2 is linked to early-onset autosomal dominant Alzheimer disease.