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Open Access

A data analysis and coordination center for the human microbiome project

  • Jennifer Wortman1,
  • Michelle Giglio1,
  • Heather Creasy1,
  • Amy Chen2,
  • Konstantinos Liolios3,
  • Ken Chu2,
  • Noam Davidovics1,
  • Mark Mazaitis1,
  • Todd DeSantis2,
  • Navjeet Singh2,
  • Joshua Orvis1,
  • Jonathan Crabtree1,
  • Victor Felix1,
  • Catherine Jordan1,
  • Anup Mahurkar1,
  • Rob Knight4,
  • Gary Andersen2,
  • Nikos Kyrpides3,
  • Victor Markowitz2 and
  • Owen White1
Genome Biology201011(Suppl 1):O13

https://doi.org/10.1186/gb-2010-11-s1-o13

Published: 11 October 2010

The Human Microbiome Project (HMP) was launched by the National Institutes of Health (NIH) Roadmap for Medical Research and is designed to fuel research into the microbes that live in the various environments of the human body [1]. A major goal of the HMP is to look for correlations between changes in the microbiome and human health. The HMP will generate unprecedented amounts of sequence, annotation and metadata. The analysis of this data requires the ability to collect, integrate, and standardize information of different types and from different sources.

The HMP Data Analysis and Coordination Center (DACC) is the central repository for all HMP data, providing a specialized data management and analysis infrastructure to support the collection, integration and standardization of HMP data and facilitate research. HMP data sets will include over 1000 reference genomes isolated from the human body, as well as 16S ribosomal RNA, and whole metagenome shotgun sequencing of samples collected from multiple body sites and individuals. Successful data integration and standardization will rely on the use of controlled vocabularies, the application of quality control measures, and the development of standard operating procedures. The DACC web portal (http://hmpdacc.org) will provide multiple analysis resources to the research community including data query and visualization, comparative genomics, 16S rRNA analysis, and comparative metagenomic community analysis. Reference genome status and relevant metadata are available through the HMP Project catalog (http://www.hmpdacc.org/project_catalog.html) while annotated HMP reference genomes are provided as part of IMG/HMP (http://www.hmpdacc-resources.org/img_hmp), an HMP specific version of the Integrated Microbial Genomes (IMG) data management and analysis system. IMG/HMP serves as a community resource for comparative analysis of HMP genomes in the comprehensive integrated context of all publicly available microbial genomes.

Authors’ Affiliations

(1)
Institute for Genome Sciences, University of Maryland School of Medicine
(2)
Lawrence Berkeley National Laboratory
(3)
Joint Genome Institute
(4)
University of Colorado at Boulder

References

  1. NIH HMP Working Group: The NIH Human Microbiome Project. Genome Res. 2009, 12: 2317-2323. 10.1101/gr.096651.109.View ArticleGoogle Scholar

Copyright

© Wortman et al; licensee BioMed Central Ltd. 2010

This article is published under license to BioMed Central Ltd.

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