Noble Research Institute 1 article published in JoVE Genetics An Array-based Comparative Genomic Hybridization Platform for Efficient Detection of Copy Number Variations in Fast Neutron-induced Medicago truncatula Mutants Yuhui Chen1, Xianfu Wang2, Shunfei Lu3, Hongcheng Wang2, Shibo Li2, Rujin Chen1 1Laboratory of Plant Genetics and Development, Noble Research Institute, 2Genetics Laboratory, University of Oklahoma Health Science Center, 3Medicine and Health School, Li Shui University This protocol provides experimental steps and information about reagents, equipment, and analysis tools for researchers who are interested in carrying out whole genome array-based comparative genomic hybridization (CGH) analysis of copy number variations in plants.