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4DNvestigator: time series genomic data analysis toolbox. | LitMetric

4DNvestigator: time series genomic data analysis toolbox.

Nucleus

Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA.

Published: December 2021

Data on genome organization and output over time, or the 4D Nucleome (4DN), require synthesis for meaningful interpretation. Development of tools for the efficient integration of these data is needed, especially for the time dimension. We present the '4DNvestigator', a user-friendly network-based toolbox for the analysis of time series genome-wide genome structure (Hi-C) and gene expression (RNA-seq) data. Additionally, we provide methods to quantify network entropy, tensor entropy, and statistically significant changes in time series Hi-C data at different genomic scales.

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Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8049205PMC
http://dx.doi.org/10.1080/19491034.2021.1910437DOI Listing

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