Provides a manually curated, searchable, metagenomic resource to facilitate investigation of human gastrointestinal microbiota. The HPMC database provides species level, standardized phylogenetic classification of over 1800 human gastrointestinal metagenomic samples. This is achieved by combining a manually curated list of bacterial genomes from human faecal samples with over 21,000 additional reference genomes representing bacteria, viruses, archaea and fungi with manually curated species classification and enhanced sample metadata annotation. A user-friendly, web-based interface provides the ability to search for (i) microbial groups associated with health or disease state, (ii) health or disease states and community structure associated with a microbial group, (iii) the enrichment of a microbial gene or sequence and (iv) enrichment of a functional annotation.
Host Microbiota Interactions Laboratory, Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, UK; Centre for Innate Immunity and Infectious Diseases, Hudson Institute of Medical Research, Clayton, Australia; Department of Molecular and Translational Sciences, Monash University, Clayton, Australia; Pathogen Informatics, Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, UK; European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, UK
HPMCD funding source(s)
Wellcome Trust ; Australian National Health and Medical Research Council ; United Kingdom Medical Research Council [PF451]; European Molecular Biology Laboratory (EMBL) core funds; Biotechnology and Biological Sciences Research Council (BBSRC) [BB/M011755/1]; Victorian Government's Operational Infrastructure Support