Integrating Hi-C and FISH data for modeling of the 3D organization of chromosomes.

ABSTRACT: The new advances in various experimental techniques that provide complementary information about the spatial conformations of chromosomes have inspired researchers to develop computational methods to fully exploit the merits of individual data sources and combine them to improve the modeling of chromosome structure. Here we propose GEM-FISH, a method for reconstructing the 3D models of chromosomes through systematically integrating both Hi-C and FISH data with the prior biophysical knowledge of a polymer model. Comprehensive tests on a set of chromosomes, for which both Hi-C and FISH data are available, demonstrate that GEM-FISH can outperform previous chromosome structure modeling methods and accurately capture the higher order spatial features of chromosome conformations. Moreover, our r

SUBMITTER: Abbas A 

PROVIDER: S-EPMC6499832 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature