To the Editor We were interested to read the recent article by Smirnov et al. 1 This excellent article described ophthalmologic phenotypes in CLN3 disease. It also raised important questions about prior reports of genotype-phenotype associations in CLN3 disease.The authors nicely illustrate the complexity of genotypephenotype associations in CLN3 disease (Figure 3 1 ). However, some of the information included from the literature did not match our understanding of those same publications.The authors list 4 genotypes associated with severe CLN3 disease. We have concerns with the classification of each of these individuals: 1. One had a 1.7-megabase pair deletion in CLN3 in trans with the common 1-kilobase pair (kb) deletion in addition to 16p11.2 deletion syndrome (reference 36 in original study 1 ). The 16p11.2 deletion is associated with an autistic phenotype that is possibly responsible for the more severe phenotype. Because of the potential impact of cooccurring genetic disorders, we suggest that discussions of the CLN3 phenotype exclude individuals with disease-causing variants in multiple genes. 2. One had the common 1-kb deletion on one allele but no variant identified on the other allele. This individual had profound neurologic symptoms at age 5 months with features that are not seen in CLN3 disease (reference 35 in original study). 1 Additionally, there was no histological evidence for CLN3 disease on electron microscopy. For these reasons, we do not think that the reported symptoms are consistent with CLN3 disease. 3. One had p.Gly187Ala in trans with the 1-kb common deletion and was reported to have a classic, not severe, juvenile neuronal ceroid lipofuscinosis (JNCL) phenotype (reference 34 in original study). 1 4. One had p.Val330Phe in trans with the 1-kb common deletion and also was reported to have classic, not severe, JNCL (reference 21 in original study). 1 We have reported a different individual with the same genotype who also had classic JNCL. 2 jamaophthalmology.com (Reprinted)