Author:
Ross Brian C.,Costello James
Abstract
AbstractWe previously published a method that infers chromosome conformation from images of fluorescently-tagged genomic loci, for the case when there are many loci labeled with each distinguishable color. Here we build on our previous work and improve the reconstruction algorithm to address previous limitations. We show that these improvements 1) increase the reconstruction accuracy and 2) allow the method to be used on large-scale problems involving several hundred labeled loci. Simulations indicate that full-chromosome reconstructions at 1/2 Mb resolution are possible using existing labeling and imaging technologies. The updated reconstruction code and the script files used for this paper are available at: https://github.com/heltilda/align3d.
Publisher
Cold Spring Harbor Laboratory
Reference15 articles.
1. “The 4D nucleome project”;Nature,2017
2. “Modeling chromosomes: beyond pretty pictures”;FEBS letters,2015
3. Silvia Kocanova , Isabelle Goiffon , and Kerstin Bystricky . “3D FISH to analyse gene domain-specific chromatin re-modeling in human cancer cell lines”. Methods (2018).
4. “Spatial organization of chromatin domains and compartments in single chro-mosomes”;Science,2016
5. “Multiplexed dynamic imaging of genomic loci by combined CRISPR imaging and DNA sequential FISH”;Biophysical journal,2017