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RNA-Rocket: an RNA-Seq analysis resource for infectious disease research.
Warren, Andrew S; Aurrecoechea, Cristina; Brunk, Brian; Desai, Prerak; Emrich, Scott; Giraldo-Calderón, Gloria I; Harb, Omar; Hix, Deborah; Lawson, Daniel; Machi, Dustin; Mao, Chunhong; McClelland, Michael; Nordberg, Eric; Shukla, Maulik; Vosshall, Leslie B; Wattam, Alice R; Will, Rebecca; Yoo, Hyun Seung; Sobral, Bruno.
Afiliação
  • Warren AS; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Aurrecoechea C; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Brunk B; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Desai P; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Emrich S; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Giraldo-Calderón GI; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Harb O; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Hix D; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Lawson D; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Machi D; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Mao C; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • McClelland M; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Nordberg E; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Shukla M; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Vosshall LB; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Wattam AR; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Will R; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Yoo HS; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
  • Sobral B; Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA, Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA, Penn Center for Bioinformatics and Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA, European B
Bioinformatics ; 31(9): 1496-8, 2015 May 01.
Article em En | MEDLINE | ID: mdl-25573919
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 used 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 AND IMPLEMENTATION: RNA-Rocket is available at rnaseq.pathogenportal.org. Source code for this project can be found at github.com/cidvbi/PathogenPortal. CONTACT: anwarren@vt.edu SUPPLEMENTARY INFORMATION: Supplementary materials are available at Bioinformatics online.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Análise de Sequência de RNA / Perfilação da Expressão Gênica / Ensaios de Triagem em Larga Escala Limite: Animals Idioma: En Revista: Bioinformatics Assunto da revista: INFORMATICA MEDICA Ano de publicação: 2015 Tipo de documento: Article
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Assunto principal: Software / Análise de Sequência de RNA / Perfilação da Expressão Gênica / Ensaios de Triagem em Larga Escala Limite: Animals Idioma: En Revista: Bioinformatics Assunto da revista: INFORMATICA MEDICA Ano de publicação: 2015 Tipo de documento: Article