To elucidate the three-dimensional (3D) chromatin architecture of aging and AD, we performed Hi-C studies on the prefrontal cortex region of post-mortem brain tissue from dementia-free elderly females (aged, n = 4, mean age = 90), female patients with AD (n = 4, mean age = 91.5), and cognitively normal young females (young, mean age = 29). During the sequencing step, two samples were randomly selected from the aged and AD groups to generate 800 million paired-end reads with an estimated resolution of 9000 bp. The other samples were sequenced for 3 billion reads with an estimated resolution of 3000 bp. According to the clustering analysis results, we found that (1) sequencing depth has clear impact on 3D-chromatin architecture profiles; (2) three groups of samples dispaly distinct but weak profiles. To improve resolution, the Hi-C data from the same groups were merged to generated single hi-c data.

This is a online tool to visualize the Hi-C data of AD, aged and young brain samples. Users can extract the 3D-chromatin architecture information by three ways:

• Browser region: to viusualize the loops within a specific region, which usually spans a long range on one chromosome.
• Customized regions: to visualize the intacting loops among input regions, which are usally small in size, e.g. TF binding sites.
• Promoter/SNPs: to visualize the looped interactions between promoter and AD GWAS SNPs

If you have any problem to use this tool, please contact menggf @ gmail.com

TD