How is possible to access microbiome data like that found here? I'd like to perform analyses on similar types of data (i.e., microbiome prevalence/frequency data among many different species), but cannot find similar OTU data like that at the Human Biome Project site.
Any leads would be appreciated.
2 answers
From reading the Science paper describing the MINE program it looks like they had a sample/OTU table. For the HMP data, you can get several versions of those, either done with mothur or QIIME, and looking at different variable regions of the 16S gene.
- For mothur analysis: http://hmpdacc.org/HMMCP/
- For QIIME: http://hmpdacc.org/HMQCP/
They also included metadata like diet in the paper. For the HMP if you want detailed info on the experimental subjects I think you have to request access through dbGaP.
Where can I get the names and the gene sequences of the types of species present in our microbiome
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it is not clear what you are looking for. What do you mean by data like that found here You will need to specify what you want/need.