The Aspergillus Mine - publishing bioinformatics.

Tammi Camilla Vesth, Jane Lind Nybo Rasmussen, Sebastian Theobald, Inge Kjærbølling, Jens Christian Frisvad, Kristian Fog Nielsen, Ellen Kirstine Lyhne, Martin Engelhard Kogle, Alan Kuo, Robert Riley, R.P. de Vries, Igor V. Grigoriev, Uffe Hasbro Mortensen, Bernard Henrissat, Scott E. Baker, Mikael Rørdam Andersen

    Research output: Contribution to conferencePosterResearchpeer-review

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    Abstract

    Genome analysis is no longer a field reserved for specialists and experimental laboratories are doing groundbreaking research using genome sequencing and analysis. In this new era, it is essential that data, analysis and results are shared between scientists. But this can be a challenge, even more so with no computational specialist. Here we present a setup for analysis and publication of genome data of 70 species of Aspergillus fungi. The platform is based on R, Python and uses the RShiny framework to create interactive web‐applications. It allows all participants to create interactive analysis which can be shared with the team and in connection with publications. We present analysis for investigation of genetic diversity, secondary and primary metabolism and general data overview. The platform, the Aspergillus Mine, is a collection of analysis tools based on data from collaboration with the Joint Genome Institute. The Aspergillus Mine is not intended as a genomic data sharing service but instead focuses on creating an environment where the results of bioinformatic analysis is made available for inspection. The data and code is public upon request and figures can be obtained directly from the web‐app. This resource will be of great benefit to the Aspergillus community which is in a rapid development in regards to genome sequencing and analysis. At the moment, the service includes analysis of more than 70 genomes, and is expected to double in the next 6 months, with the final goal of the project is the analysis of 300 Aspergillus species.
    Original languageEnglish
    Publication date2016
    Number of pages1
    DOIs
    Publication statusPublished - 2016
    Event15th European Conference on Computational Biology - Churchillplein 10, 2517 JW, Den Haag, Netherlands
    Duration: 3 Sep 20167 Sep 2016
    Conference number: 15
    http://www.eccb2016.org/

    Conference

    Conference15th European Conference on Computational Biology
    Number15
    LocationChurchillplein 10, 2517 JW
    CountryNetherlands
    CityDen Haag
    Period03/09/201607/09/2016
    Internet address

    Bibliographical note

    F1000Research 2016, 5:2287 (poster) doi: 10.7490/f1000research.1113115.1

    Keywords

    • Comparative genomics
    • Bioinformatic
    • Fungi
    • Aspergillus
    • Data publishing

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