NuChart: an R package to study gene spatial neighbourhoods with multi-omics annotations.

ABSTRACT: Long-range chromosomal associations between genomic regions, and their repositioning in the 3D space of the nucleus, are now considered to be key contributors to the regulation of gene expression and important links have been highlighted with other genomic features involved in DNA rearrangements. Recent Chromosome Conformation Capture (3C) measurements performed with high throughput sequencing (Hi-C) and molecular dynamics studies show that there is a large correlation between colocalization and coregulation of genes, but these important researches are hampered by the lack of biologists-friendly analysis and visualisation software. Here, we describe NuChart, an R package that allows the user to annotate and statistically analyse a list of input genes with information relying on Hi-C data,

SUBMITTER: Merelli I 

PROVIDER: S-EPMC3777921 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature