RT Journal Article
SR Electronic
T1 RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 007963
DO 10.1101/007963
A1 Andrew S. Warren
A1 Cristina Aurrecoechea
A1 Brian Brunk
A1 Prerak Desai
A1 Scott Emrich
A1 Gloria I. Giraldo-Calderón
A1 Omar Harb
A1 Deborah Hix
A1 Daniel Lawson
A1 Dustin Machi
A1 Chunhong Mao
A1 Michael McClelland
A1 Eric Nordberg
A1 Maulik Shukla
A1 Leslie B. Vosshall
A1 Alice R. Wattam
A1 Rebecca Will
A1 Hyun Seung Yoo
A1 Bruno Sobral
YR 2014
UL http://biorxiv.org/content/early/2014/08/14/007963.1.abstract
AB Motivation: RNA-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.Results: RNA-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.Availability: RNA-Rocket can be found at rnaseq.pathogenportal.org Source code for this project can be found at github.com/cidvbi/PathogenPortal