Dec 18, 2014

BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data

BioRxiv : the Preprint Server for Biology
Andrey V Kartashov, Artem Barski

Abstract

BioWardrobe is an integrated platform that empowers users to store, visualize and analyze epigenomics and transcriptomics data, without the need for programming expertise, by using a biologist-friendly webbased user interface. Predefined pipelines automate download of data from core facilities or public databases, calculate RPKMs and identify peaks and display results via the interactive web interface. Additional capabilities include analyzing differential gene expression and DNA-protein binding and creating average tag density profiles and heatmaps. * ATAC-Seq : assay for transposase-accessible chromatin sequencing ChIP : chromatin immunoprecipitation ChIP-Seq : chromatin immunoprecipitation sequencing D3 : data-driven documents DNase-Seq : DNase I hypersensitive sites sequencing EXTJS : extension JavaScript ftp : file transfer protocol GEO : Gene Expression Omnibus GRO-Seq : global run-on sequencing HIPAA : Health Insurance Portability and Accountability Act of 1996 HTML : hypertext markup language MACS : model-based analysis of ChIP-Seq MAnorm : a model for quantitative comparison of ChIP-Seq datas...Continue Reading

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Mentioned in this Paper

STAR protein, human
Genome-Wide Association Study
CXCL1 protein, human
Size
Transposase
Protein Binding
Deoxyribonuclease I
Required for Consumer
Steroid receptor RNA activator
Genome

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