摘要：Single-molecule DNA fuorescence in situ hybridization (FISH) techniques enable studying the three- dimensional (3D) organization of the genome at the single cell level . However, there is a major unmet need for open access, high quality, curated and reproducible DNA FISH datasets . Here, we describe a dataset obtained by applying our recently developed iFISH method to simultaneously visualize 16 small (size range: 62–73 kilobases, kb) DNA loci evenly spaced on chromosome 2 in human cells, in a single round of hybridization . We show how combinatorial color coding can be used to precisely localize multiple loci in 3D within single cells, and how inter-locus distances scale inversely with chromosome contact frequencies determined by high-throughput chromosome conformation capture (Hi-C) . We provide raw images and 3D coordinates for nearly 10,000 FISH dots . Our dataset provides a free resource that can facilitate studies of 3D genome organization in single cells and can be used to develop automatic FISH analysis algorithms .
