RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research

Andrew S. Warren; Cristina Aurrecoechea; Brian Brunk; Prerak Desai; Scott Emrich; Gloria I. Giraldo-Calderón; Omar Harb; Deborah Hix; Daniel Lawson; Dustin Machi; Chunhong Mao; Michael McClelland; Eric Nordberg; Maulik Shukla; Leslie B. Vosshall; Alice R. Wattam; Rebecca Will; Hyun Seung Yoo; Bruno Sobral

doi:10.1101/007963

bioRxiv · 10.1101/007963

RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research

Andrew S. Warren·Cristina Aurrecoechea·Brian Brunk·Prerak Desai·Scott Emrich·Gloria I. Giraldo-Calderón·Omar Harb·Deborah Hix·Daniel Lawson·Dustin Machi·Chunhong Mao·Michael McClelland·Eric Nordberg·Maulik Shukla·Leslie B. Vosshall·Alice R. Wattam·Rebecca Will·Hyun Seung Yoo·Bruno Sobral

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Abstract

MotivationRNA-Seq is a method for profiling transcription using high-throughput sequencing and is an important component of many research projects that wish to study transcript isoforms, condition specific expression, and transcriptional structure. The methods, tools, and technologies employed to perform RNA-Seq analysis continue to change, creating a bioinformatics challenge for researchers who wish to exploit these data. Resources that bring together genomic data, analysis tools, educational material, and computational infrastructure can minimize the overhead required of life science researchers.\n\nResultsRNA-Rocket is a free service that provides access to RNA-Seq and ChIP-Seq analysis tools for studying infectious diseases. The site makes available thousands of pre-indexed genomes, their annotations, and the ability to stream results to the bioinformatics resources VectorBase, EuPathDB, and PATRIC. The site also provides a combination of experimental data and metadata, examples of pre-computed analysis, step-by-step guides, and a user interface designed to enable both novice and experienced users of RNA-Seq data.\n\nAvailability: RNA-Rocket can be found at rnaseq.pathogenportal.org Source code for this project can be found at github.com/cidvbi/PathogenPortal

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Andrew S. Warren, Cristina Aurrecoechea, Brian Brunk, Prerak Desai, Scott Emrich, Gloria I. Giraldo-Calderón, Omar Harb, Deborah Hix, Daniel Lawson, Dustin Machi, Chunhong Mao, Michael McClelland, Eric Nordberg, Maulik Shukla, Leslie B. Vosshall, Alice R. Wattam, Rebecca Will, Hyun Seung Yoo, Bruno Sobral. 2014-08-14. RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research. https://doi.org/10.1101/007963

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