C3D: a tool to predict 3D genomic interactions between cis-regulatory elements | Zendy

Tahmid Mehdi | Zendy; Swneke D. Bailey | Zendy; Paul Guilhamon | Zendy; Mathieu Lupien | Zendy

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C3D: a tool to predict 3D genomic interactions between cis-regulatory elements

Author(s) -

Tahmid Mehdi,

Swneke D. Bailey,

Paul Guilhamon,

Mathieu Lupien

Publication year - 2018

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bty717

Subject(s) - chromatin , source code , computational biology , computer science , promoter , license , mit license , genome , dna , r package , gene , biology , data mining , genetics , programming language , gene expression , operating system

The 3D genome architecture influences the regulation of genes by facilitating chromatin interactions between distal cis-regulatory elements and gene promoters. We implement Cross Cell-type Correlation based on DNA accessibility (C3D), a customizable computational tool that predicts chromatin interactions using an unsupervised algorithm that utilizes correlations in chromatin measurements, such as DNaseI hypersensitivity signals.

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