Format

Send to

Choose Destination
Nucleic Acids Res. 2018 Jan 4;46(D1):D684-D691. doi: 10.1093/nar/gkx1027.

MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments.

Author information

1
Instituto René Rachou, FIOCRUZ/Minas, Belo Horizonte, Minas Gerais, Brazil.
2
Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil.
3
Institute for Biomedical Informatics, University of Pennsylvania, Philadelphia, PA 19104, USA.
4
Department of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
5
Department of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA.
6
Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA.
7
Department of Genetics, University of Georgia, Athens, GA 30602, USA.
8
Institute of Bioinformatics, University of Georgia, Athens, GA 30602, USA.
9
Department of Pathobiology, School of Veterinary Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.

Abstract

MicrobiomeDB (http://microbiomeDB.org) is a data discovery and analysis platform that empowers researchers to fully leverage experimental variables to interrogate microbiome datasets. MicrobiomeDB was developed in collaboration with the Eukaryotic Pathogens Bioinformatics Resource Center (http://EuPathDB.org) and leverages the infrastructure and user interface of EuPathDB, which allows users to construct in silico experiments using an intuitive graphical 'strategy' approach. The current release of the database integrates microbial census data with sample details for nearly 14 000 samples originating from human, animal and environmental sources, including over 9000 samples from healthy human subjects in the Human Microbiome Project (http://portal.ihmpdcc.org/). Query results can be statistically analyzed and graphically visualized via interactive web applications launched directly in the browser, providing insight into microbial community diversity and allowing users to identify taxa associated with any experimental covariate.

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center