Fig. 3 |. Comparison between ORCA and other methods.

a, Comparison of ORCA generated average contact frequency map⁴⁶ to a Hi-C generated map⁷⁹, for a 2 Mb region from IMR90 human fibroblasts. b, Comparison of maps from individual cells imaged by ORCA⁴⁶ or by single cell Hi-C^52,56 for syntenic genomic intervals for the indicated cell lines. For the scHi-C data, the cell with the most total reads in the dataset is shown. Missed detection events are grey in the scHi-C maps and appear as white stripes in the ORCA maps. Please refer to Step 234 in the Troubleshooting table for potential reasons why these stripes are present in the single-cell ORCA distance maps. c, oligoSTORM resolves chromatin structural ‘shape properties’ below the diffraction limit, such as asphericity and compaction. (Left) 150 kb H3K4me2-rich chromatin (green) and ~150kb of adjacent H3K27me3 rich chromatin (magenta), (chr3R:12.65–12.95 Mb). (Right) Two adjacent regions of H3K4me2-rich chromatin in green and magenta (chr2R:19.7–19.9 Mb), images from Drosophila KC167 cells⁹. d, ORCA allows both the 3D features identified from STORM to be quantified and provides additional information about the path of the chromatin fiber. Examples are from BX-C (chr3R:12.5–12.8 Mb) in different cells of a Drosophila embryo, which are part of our previously published data²⁵.