CoGe LoadExp+: A web‐based suite that integrates next‐generation sequencing data analysis workflows and visualization. (20th July 2017)

• Record Type: Journal Article
• Authors: Grover, Jeffrey W.; Bomhoff, Matthew; Davey, Sean; Gregory, Brian D.; Mosher, Rebecca A.; Lyons, Eric
• Is Part Of: Plant direct. Volume 1:Number 2(2017)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2017-07-20
• Subjects: bisulfite sequencing -- ChIP‐seq -- DNA methylation -- epigenomics -- expression analysis -- genomics -- next‐generation sequencing -- population genetics -- RNA‐seq -- SNP identification; Plants -- Periodicals; Botany -- Periodicals; 571.205
• DOI: 10.1002/pld3.8
• Languages: English
• ISSNs: 2475-4455

Abstract

Summary: To make genomic and epigenomic analyses more widely available to the biological research community, we have created LoadExp+, a suite of bioinformatics workflows integrated with the web‐based comparative genomics platform, CoGe. LoadExp+ allows users to perform transcriptomic (RNA‐seq), epigenomic (bisulfite‐seq), chromatin‐binding (ChIP‐seq), variant identification (SNPs), and population genetics analyses against any genome in CoGe, including genomes integrated by users themselves. Through LoadExp+'s integration with CoGe's existing features, all analyses are available for visualization and additional downstream processing, and are available for export to CyVerse's data management and analysis platforms. LoadExp+ provides easy‐to‐use functionality to manage genomics and epigenomics data throughout its entire lifecycle using a publicly available web‐based platform and facilitates greater accessibility of genomics analyses to researchers of all skill levels. LoadExp+ can be accessed athttps://genomevolution.org .