Analysis methods for studying the 3D architecture of the genome

Genome Biology
Ferhat Ay, William Stafford Noble

Abstract

The rapidly increasing quantity of genome-wide chromosome conformation capture data presents great opportunities and challenges in the computational modeling and interpretation of the three-dimensional genome. In particular, with recent trends towards higher-resolution high-throughput chromosome conformation capture (Hi-C) data, the diversity and complexity of biological hypotheses that can be tested necessitates rigorous computational and statistical methods as well as scalable pipelines to interpret these datasets. Here we review computational tools to interpret Hi-C data, including pipelines for mapping, filtering, and normalization, and methods for confidence estimation, domain calling, visualization, and three-dimensional modeling.

Associated Proceedings Papers

Feb 26, 2020·Mats CarlssonKimberly MacKay

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Related Concepts

Hic1
Chromosome Structures
Heuristics
Imbalance
homer
Genome
Enzymes, antithrombotic
Three-dimensional
High Throughput Screening
Restriction Site

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