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CHiCP: a web-based tool for the integrative and interactive visualization of promoter capture Hi-C datasets.

Published version
Peer-reviewed

Repository DOI


Type

Article

Change log

Authors

Schofield, EC 
Carver, T 
Achuthan, P 
Freire-Pritchett, P 
Spivakov, M 

Abstract

UNLABELLED: Promoter capture Hi-C (PCHi-C) allows the genome-wide interrogation of physical interactions between distal DNA regulatory elements and gene promoters in multiple tissue contexts. Visual integration of the resultant chromosome interaction maps with other sources of genomic annotations can provide insight into underlying regulatory mechanisms. We have developed Capture HiC Plotter (CHiCP), a web-based tool that allows interactive exploration of PCHi-C interaction maps and integration with both public and user-defined genomic datasets. AVAILABILITY AND IMPLEMENTATION: CHiCP is freely accessible from www.chicp.org and supports most major HTML5 compliant web browsers. Full source code and installation instructions are available from http://github.com/D-I-L/django-chicp CONTACT: ob219@cam.ac.uk.

Description

Keywords

Chromosomes, Computer Graphics, Genome, Genomics, Internet, Promoter Regions, Genetic, Regulatory Elements, Transcriptional, Software

Journal Title

Bioinformatics

Conference Name

Journal ISSN

1367-4803
1367-4811

Volume Title

32

Publisher

Oxford University Press (OUP)
Sponsorship
Wellcome Trust (100140/Z/12/Z)
Wellcome Trust (091157/Z/10/B)
Biotechnology and Biological Sciences Research Council (BBS/E/B/000C0405)
Biotechnology and Biological Sciences Research Council (BBS/E/B/000C0404)