Methods for associating a genetic variant with intraretinal fluid as a marker for response to therapy with anti-VEGF in age-related macular degeneration (AMD). Disclosed herein are further methods for associating a genetic variant with visual acuity, anatomic outcomes or treatment frequency. The genetic variants identified are found in a gene-free region on chromosome X p.22.3, in the MECOM gene, in the NTRK3 gene and in the ANK2 gene.