AUTHOR=Richardson Emily J., Escalettes Franck , Fotheringham Ian , Wallace Robert J., Watson Mick 

TITLE=Meta4: a web application for sharing and annotating metagenomic gene predictions using web services

JOURNAL=Frontiers in Genetics

VOLUME=Volume 4 - 2013

YEAR=2013

URL=https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2013.00168

DOI=10.3389/fgene.2013.00168

ISSN=1664-8021

ABSTRACT=Whole-genome-shotgun (WGS) metagenomics experiments produce DNA sequence data from entire ecosystems, and provide a huge amount of novel information.  Gene discovery projects require up-to-date information about sequence homology and domain structure for millions of predicted proteins to be presented in a simple, easy-to-use system.  There is a lack of simple, open, flexible tools that allow the rapid sharing of metagenomics datasets with collaborators in a format they can easily interrogate.  We present Meta4, a flexible and extensible web-application that can be used to share and annotate metagenomic gene predictions.  Proteins and predicted domains are stored in a simple relational database, with a dynamic front-end which displays the results in an internet browser.  Web-services are used to provide up-to-date information about the proteins from homology searches against public databases.  Information about Meta4 can be found on the project website (http://www.ark-genomics.org/bioinformatics/meta4), code is available on Github (https://github.com/mw55309/meta4), a cloud image is available, and an example implementation can be seen at http://www.ark-genomics.org/tools/meta4