Work

Improved inference of chromosome conformation from images of labeled loci

Year: 2018

Type: article

Abstract: We 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 .

Source: F1000Research

DOI: 10.12688/f1000research.16252.1

Authors: Brian C. Ross, James Costello

Institutions: University of Colorado Anschutz, University of Colorado Denver

Language: English

Topic: Genomics and Chromatin Dynamics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $1,350

Funders: Boettcher Foundation, Cancer League of Colorado, National Institutes of Health