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Welcome to the HPMCD

The application of whole genome, metagenomic sequencing to uncover the microbial diversity present in almost every environment is revolutionizing many aspects of biology. In particular areas of metagenomic research, the underlying biological knowledge exists and the potential user groups are sufficiently broad to necessitate the existence of specific databases with specialized search functionality. The microbiota found within humans and the human gastrointestinal tract particularly, represents one such area. From basic research, disease association and biomarker discovery to intervention through bacteriotherapy the importance of microbiota colonization to human health is continually emerging and represents and active area of research.

The search interface to enable this functionality has been specifically designed to support three user groups:

  1. Microbiology researchers: identification and investigation of conditions where species or phylogenetic groups of interest are dominant or absent to further biological and functional understandings of important or poorly described species.
  2. Clinical and disease based researchers: identification of microbiota and community structures typical of a condition or disease state of interest that could be suitable susceptibility biomarkers or bacteriotherapy candidates
  3. Genetics and Genomics based researchers: identification of conditions or communities where genes or functional capability exist such as conditions with a dominance or absence of antimicrobial resistance or important metabolic pathways.

User guides and tutorials are available on the help pages

Recent Updates

HPMCD Published in Nucleic Acids Research
The paper is available here (Open Access).
Citation information can be found on the Help Page


Interactive Species Annotation Live!
Community annotation of organisms now supported. See Help Page for more information


New Species
207 new Bacterial Genomes Included


Database Update
HPMCD is now live.
Thank-you to those who assisted with testing!


New Samples
84 new healthy metagenomic samples now included


New Samples
24 new healthy metagenomics samples now included.


New Species
42 new Bacterial Genomes Included